Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold135
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: 369576
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 82397 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:590 original size:156 final size:155
Alignment explanation
Indices: 390--675 Score: 405
Period size: 156 Copynumber: 1.8 Consensus size: 155
380 AGGGTAGAAA
* ** *
390 CTTGAAACGTTGTTCTGGCTTTGAAATGCTATGATTATGCTTTTTCTATT-TTTAAAC-GAGTTG
1 CTTGAAACGTTGTTCTGGCTTTGAAATGCAACCATTATGCTTTTTCCATTATTTAAACAG-GTTG
* * * *
453 TTAAATGCCTACTGAGTGGTGATTACTTTTTAATCTTCCTCTTAAATTTATTGATGCAGGAGAAT
65 TTAAATGCCTACTGAGTGGCGATTACTTTTTAATATTACTCGT-AATTTATTGATGCAGGAGAAT
518 ATAAAAAGAAAAAGTTGTTATAATATT
129 ATAAAAAGAAAAAGTTGTTATAATATT
* *
545 CTTGAAACGGTTGTTCTGGCTTTGAAATGCAACCATTTTGCTTTTTCCATTATTTAAACAGGTTT
1 CTTGAAAC-GTTGTTCTGGCTTTGAAATGCAACCATTATGCTTTTTCCATTATTTAAACAGGTTG
* * * *
610 TTAAATGGCTACTGAGTGGCGTTTACTTTTTAATATTACTCGTATTTTGTTGATGCAGGAGAATA
65 TTAAATGCCTACTGAGTGGCGATTACTTTTTAATATTACTCGTAATTTATTGATGCAGGAGAATA
675 T
130 T
676 GTAAAAAAGA
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
155 8 0.07
156 58 0.51
157 47 0.41
158 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (155 bp):
CTTGAAACGTTGTTCTGGCTTTGAAATGCAACCATTATGCTTTTTCCATTATTTAAACAGGTTGT
TAAATGCCTACTGAGTGGCGATTACTTTTTAATATTACTCGTAATTTATTGATGCAGGAGAATAT
AAAAAGAAAAAGTTGTTATAATATT
Found at i:743 original size:87 final size:88
Alignment explanation
Indices: 645--810 Score: 253
Period size: 88 Copynumber: 1.9 Consensus size: 88
635 CTTTTTAATA
* * * **
645 TTACTCGTATTTTGTTGATGCAGGAGAATATGT-AAAAAAGAGTTCAAATGAAATGGTGCTTTGA
1 TTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTCAAATGAAATGGCCCTTTGA
709 CTTTTTTTCGTTTACTTTTACAC
66 CTTTTTTTCGTTTACTTTTACAC
**
732 TTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTTGAATGAAATGGCCCTTTGA
1 TTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTCAAATGAAATGGCCCTTTGA
*
797 CTTTTTTTCTTTTA
66 CTTTTTTTCGTTTA
811 TTATCTATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 30 0.43
88 40 0.57
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (88 bp):
TTACTCATATTTTATTGATGCAGAAGAATATGTAAAAAAAGAGTTCAAATGAAATGGCCCTTTGA
CTTTTTTTCGTTTACTTTTACAC
Found at i:17295 original size:20 final size:20
Alignment explanation
Indices: 17270--17319 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
17260 ACACGCTCCT
17270 ATGTATCGATGCAATTCATA
1 ATGTATCGATGCAATTCATA
17290 ATGTATCGATGCAATTCATA
1 ATGTATCGATGCAATTCATA
17310 ATGTATCGAT
1 ATGTATCGAT
17320 ACATTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGTATCGATGCAATTCATA
Found at i:17399 original size:13 final size:13
Alignment explanation
Indices: 17380--17418 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
17370 AACTATTCAT
*
17380 ATGTATCGATACC
1 ATGTATCGATACA
* *
17393 CTGTATCGATATA
1 ATGTATCGATACA
17406 ATGTATCGATACA
1 ATGTATCGATACA
17419 TAAACAGTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17481 original size:24 final size:24
Alignment explanation
Indices: 17414--17487 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
17404 TAATGTATCG
* * * *
17414 ATACATAAACAGTGATGAACAGTG
1 ATACATAAATAGTGATAAATAGTA
*
17438 ATACATGAATAGTGATAAATAGTA
1 ATACATAAATAGTGATAAATAGTA
17462 ATACATAAATAGTGATAAATAGTA
1 ATACATAAATAGTGATAAATAGTA
17486 AT
1 AT
17488 GTATCAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (24 bp):
ATACATAAATAGTGATAAATAGTA
Found at i:20518 original size:21 final size:21
Alignment explanation
Indices: 20455--20511 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
20445 TTTATTAGTT
*
20455 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTCA-TTTCC
20476 AACTCATTTC-TTTTCATTTCC
1 AACTCA-TTCATTTTCATTTCC
20497 AACTCATTCATTTTC
1 AACTCATTCATTTTC
20512 TTCTCCAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 21 0.66
22 6 0.19
23 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (21 bp):
AACTCATTCATTTTCATTTCC
Found at i:22668 original size:14 final size:14
Alignment explanation
Indices: 22645--22684 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
22635 ATAAATAGTG
* *
22645 ATGAACAGTGATAT
1 ATGAATAGTGATAC
22659 ATGAATAGTGATAC
1 ATGAATAGTGATAC
22673 ATGAATAGTGAT
1 ATGAATAGTGAT
22685 GAATAGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (14 bp):
ATGAATAGTGATAC
Found at i:26228 original size:8 final size:8
Alignment explanation
Indices: 26215--26239 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26205 GATGAACAAA
26215 AAAAAAAG
1 AAAAAAAG
26223 AAAAAAAG
1 AAAAAAAG
26231 AAAAAAAG
1 AAAAAAAG
26239 A
1 A
26240 GTGCAAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:27506 original size:32 final size:32
Alignment explanation
Indices: 27456--28118 Score: 569
Period size: 32 Copynumber: 20.9 Consensus size: 32
27446 CCACGATTTA
* * *
27456 GTGGTAACCCTTCTCAAAGCCCGCACAAGCTG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
* * *
27488 GTGGCAACGCTTTTCAAAGCCCACATATGCTG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
* *
27520 GTGGCAACCCTTCTCAAAGCCCACACAAGCCG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
* *
27552 GTGGTAACCC-TTTCAAAAGCCCACACAAGCTA
1 GTGGCAACCCTTTTC-AAAGCCCACACAAGCTG
*
27584 GTGGCAA-CCTCTTCTAAAGCCCACACAAG-TCG
1 GTGGCAACCCTTTTC-AAAGCCCACACAAGCT-G
* **
27616 GTGGCAACCCTTCT-AAAGCCCACACAAGCCA
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
* * * * **
27647 ATGGCAA-CCTTTCTCAAATCTCGCACAAGCCA
1 GTGGCAACCCTTT-TCAAAGCCCACACAAGCTG
* *
27679 GTGG-AAACCTTTTCAAAAGCTCACACAAGCTG
1 GTGGCAACCCTTTTC-AAAGCCCACACAAGCTG
* * *
27711 GTGGCAACCCTTCT-AAAGCCTACACAAGCCG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
*
27742 GTGGCAA-CCTCTTCTAAAGCCCACACAAG-TCG
1 GTGGCAACCCTTTTC-AAAGCCCACACAAGCT-G
* *
27774 GTGGCAACCCTTCTT-AAAGGCCACACAAGCCG
1 GTGGCAACCCTT-TTCAAAGCCCACACAAGCTG
*
27806 GTGGCAACCCTTCTCAAAGCCCACACAAGCTG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
* *
27838 GTGGCAACCCTTCTCAAAGCCCACACAAGCCG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
* * *
27870 ATGGTAACCC-TCTCAAAAGCCCACACAAGCTG
1 GTGGCAACCCTTTTC-AAAGCCCACACAAGCTG
* *
27902 GTGGCAA-CCTCTTCTAAAGCCCACACAAG-TCA
1 GTGGCAACCCTTTTC-AAAGCCCACACAAGCT-G
* * * *
27934 ATAGCAACCCTTCTCAAAGCCTACACAAG-TCG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCT-G
*
27966 GTGGCAA-CCTTTTCCAAAGCCCACACAAGCTA
1 GTGGCAACCCTTTT-CAAAGCCCACACAAGCTG
* * * *
27998 GTAGCAACCCTTCT-AAATCCCACACAAG-TCA
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCT-G
*
28029 GTGGCAACCCTTTT-AAAGTCCACACAAG-TCG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCT-G
* * *
28060 GTGGCAATCCTTTT-ATAGTCCACACAAG-TCG
1 GTGGCAACCCTTTTCAAAGCCCACACAAGCT-G
* *
28091 GTGGCAATCCTTTT-AAAGTCCACACAAG
1 GTGGCAACCCTTTTCAAAGCCCACACAAG
28119 TGGCAACCCT
Statistics
Matches: 526, Mismatches: 80, Indels: 51
0.80 0.12 0.08
Matches are distributed among these distances:
30 9 0.02
31 161 0.31
32 329 0.63
33 25 0.05
34 2 0.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (32 bp):
GTGGCAACCCTTTTCAAAGCCCACACAAGCTG
Found at i:27537 original size:64 final size:64
Alignment explanation
Indices: 27456--28118 Score: 631
Period size: 64 Copynumber: 10.5 Consensus size: 64
27446 CCACGATTTA
* * * * *
27456 GTGGTAACCCTTCTCAAAGCCCGCACAAGCTGGTGGCAACGCTTTTC-AAAGCCCACATATGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAAC-CTTTTCAAAAGCCCACACAAGCTG
* * *
27520 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGTAACCCTTTCAAAAGCCCACACAAGCTA
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
* * * **
27584 GTGGCAACCTCTTCT-AAAGCCCACACAAGTCGGTGGCAACC-CTTCTAAAGCCCACACAAGCCA
1 GTGGCAACC-CTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
* * * * * * * *
27647 ATGGCAACCTTTCTCAAATCTCGCACAAGCCAGTGGAAACCTTTTCAAAAGCTCACACAAGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
* * *
27711 GTGGCAACCCTTCT-AAAGCCTACACAAGCCGGTGGCAACCTCTTCTAAAGCCCACACAAG-TCG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCT-G
* * *
27774 GTGGCAACCCTTCTTAAAGGCCACACAAGCCGGTGGCAACCCTTCTC-AAAGCCCACACAAGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTTTCAAAAGCCCACACAAGCTG
* * * *
27838 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGTAACCCTCTCAAAAGCCCACACAAGCTG
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
* ** * * *
27902 GTGGCAACCTCTTCT-AAAGCCCACACAAGTCAATAGCAACCCTTCTC-AAAGCCTACACAAG-T
1 GTGGCAACC-CTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTTTCAAAAGCCCACACAAGCT
27964 CG
64 -G
* ** * * * *
27966 GTGGCAA-CCTTTTCCAAAGCCCACACAAGCTAGTAGCAACC-CTTCTAAATCCCACACAAG-TC
1 GTGGCAACCCTTCT-CAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCT-
*
28028 A
64 G
* * * * *
28029 GTGGCAACCCTT-TTAAAGTCCACACAAGTCGGTGGCAATCCTTTT--ATAGTCCACACAAG-TC
1 GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAA-CCTTTTCAAAAGCCCACACAAGCT-
28090 G
64 G
* * *
28091 GTGGCAATCCTT-TTAAAGTCCACACAAG
1 GTGGCAACCCTTCTCAAAGCCCACACAAG
28119 TGGCAACCCT
Statistics
Matches: 508, Mismatches: 73, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
62 70 0.14
63 138 0.27
64 278 0.55
65 22 0.04
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (64 bp):
GTGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
Found at i:27571 original size:96 final size:94
Alignment explanation
Indices: 27455--28118 Score: 675
Period size: 96 Copynumber: 7.0 Consensus size: 94
27445 CCCACGATTT
* * * *
27455 AGTGGTAACCCTTCTCAAAGCCCGCACAAGCTGGTGGCAACGCTTTTC-AAAGCCCACATATGCT
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCTGGTGGCAAC-CTTTTCAAAAGCCCACACAAGCT
27519 GGTGGCAACCCTTCTCAAAGCCCACACAAGCC
64 GGTGGCAACCCTTCT-AAAGCCCACACAAGCC
* * * * *
27551 GGTGGTAACCCTTTCAAAAGCCCACACAAGCTAGTGGCAACCTCTTCTAAAGCCCACACAAG-TC
1 AGTGGCAACCCTTTC-AAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCT-
27615 GGTGGCAACCCTTCTAAAGCCCACACAAGCC
64 GGTGGCAACCCTTCTAAAGCCCACACAAGCC
* * * * * ** * *
27646 AATGGCAACCTTTCTCAAATCTCGCACAAGCCAGTGGAAACCTTTTCAAAAGCTCACACAAGCTG
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
*
27711 GTGGCAACCCTTCTAAAGCCTACACAAGCC
65 GTGGCAACCCTTCTAAAGCCCACACAAGCC
* *
27741 GGTGGCAA-CCTCTTCTAAAGCCCACACAAG-TCGGTGGCAACCCTTCTT--AAAGGCCACACAA
1 AGTGGCAACCCT-TTC-AAAGCCCACACAAGCT-GGTGGCAA-CCTT-TTCAAAAGCCCACACAA
* *
27802 GCCGGTGGCAACCCTTCTCAAAGCCCACACAAGCT
61 GCTGGTGGCAACCCTTCT-AAAGCCCACACAAGCC
* * * * * *
27837 GGTGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGTAACCCTCTCAAAAGCCCACACAAGCTG
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCTG
*
27902 GTGGCAACCTCTTCTAAAGCCCACACAAGTC
65 GTGGCAACC-CTTCTAAAGCCCACACAAGCC
* * * *
27933 AATAGCAACCCTTCTCAAAGCCTACACAAG-TCGGTGGCAACCTTTTCCAAAGCCCACACAAGCT
1 AGTGGCAACCCTT-TCAAAGCCCACACAAGCT-GGTGGCAACCTTTTCAAAAGCCCACACAAGCT
* * * *
27997 AGTAGCAACCCTTCTAAATCCCACACAAGTC
64 GGTGGCAACCCTTCTAAAGCCCACACAAGCC
* * * *
28028 AGTGGCAACCCTTTTAAAGTCCACACAAG-TCGGTGGCAATCCTTTT--ATAGTCCACACAAG-T
1 AGTGGCAACCCTTTCAAAGCCCACACAAGCT-GGTGGCAA-CCTTTTCAAAAGCCCACACAAGCT
* * *
28089 CGGTGGCAATCCTTTTAAAGTCCACACAAG
64 -GGTGGCAACCCTTCTAAAGCCCACACAAG
28119 TGGCAACCCT
Statistics
Matches: 480, Mismatches: 68, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
92 1 0.00
93 35 0.07
94 28 0.06
95 193 0.40
96 211 0.44
97 12 0.03
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (94 bp):
AGTGGCAACCCTTTCAAAGCCCACACAAGCTGGTGGCAACCTTTTCAAAAGCCCACACAAGCTGG
TGGCAACCCTTCTAAAGCCCACACAAGCC
Found at i:28038 original size:318 final size:317
Alignment explanation
Indices: 27456--28118 Score: 906
Period size: 318 Copynumber: 2.1 Consensus size: 317
27446 CCACGATTTA
* * * * * * * *
27456 GTGGTAACCCTTCTCAAAGCCCGCACAAGCTGGTGGCAACGCTTTTCAAAGCCCACATATGCTGG
1 GTGGCAACCCTTCTTAAAGCCCACACAAGCCGGTGGCAACCCTTCTCAAAGCCCACACAAGCTGG
* *
27521 TGGCAACCCTTCTCAAAGCCCACACAAGCCGGTGGTAACCCTTTCAAAAGCCCACACAAGCTAGT
66 TGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGTAACCCTCTCAAAAGCCCACACAAGCTAGT
** *
27586 GGCAACCTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGCCAATGG
131 GGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCTAAAGCCCACACAAGCCAATGG
* * * * * * *
27651 CAACCTTTCTCAAATCTCGCACAAGCCAGTGGAAACCTTTTCAAAAGCTCACACAAGCTGGTGGC
196 CAACCTTTCTCAAAGCCCACACAAGCCAGTAGAAACCTCTTCAAAAGCCCACACAAGCTAGTGGC
27716 AACCCTTCTAAAG-CCTACACAAGCCGGTGGCAA-CCTCTTCTAAAGCCCACACAAGTCG
261 AACCCTTCTAAAGTCC-ACACAAGCCGGTGGCAATCCT-TT-TAAAGCCCACACAAGTCG
*
27774 GTGGCAACCCTTCTTAAAGGCCACACAAGCCGGTGGCAACCCTTCTCAAAGCCCACACAAGCTGG
1 GTGGCAACCCTTCTTAAAGCCCACACAAGCCGGTGGCAACCCTTCTCAAAGCCCACACAAGCTGG
*
27839 TGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGTAACCCTCTCAAAAGCCCACACAAGCTGGT
66 TGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGTAACCCTCTCAAAAGCCCACACAAGCTAGT
* * **
27904 GGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCTCAAAGCCTACACAAGTCGGTG
131 GGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCT-AAAGCCCACACAAGCCAATG
* * * *
27969 GCAACCTTT-TCCAAAGCCCACACAAGCTAGTAGCAACC-CTTCTAAATCCCACACAAG-TCAGT
195 GCAACCTTTCT-CAAAGCCCACACAAGCCAGTAGAAACCTCTTCAAAAGCCCACACAAGCT-AGT
* * * *
28031 GGCAACCCTTTTAAAGTCCACACAAGTCGGTGGCAATCCTTTTATAGTCCACACAAGTCG
258 GGCAACCCTTCTAAAGTCCACACAAGCCGGTGGCAATCCTTTTAAAGCCCACACAAGTCG
* *
28091 GTGGCAATCCTT-TTAAAGTCCACACAAG
1 GTGGCAACCCTTCTTAAAGCCCACACAAG
28119 TGGCAACCCT
Statistics
Matches: 304, Mismatches: 36, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
316 15 0.05
317 28 0.09
318 210 0.69
319 51 0.17
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (317 bp):
GTGGCAACCCTTCTTAAAGCCCACACAAGCCGGTGGCAACCCTTCTCAAAGCCCACACAAGCTGG
TGGCAACCCTTCTCAAAGCCCACACAAGCCGATGGTAACCCTCTCAAAAGCCCACACAAGCTAGT
GGCAACCTCTTCTAAAGCCCACACAAGTCAATAGCAACCCTTCTAAAGCCCACACAAGCCAATGG
CAACCTTTCTCAAAGCCCACACAAGCCAGTAGAAACCTCTTCAAAAGCCCACACAAGCTAGTGGC
AACCCTTCTAAAGTCCACACAAGCCGGTGGCAATCCTTTTAAAGCCCACACAAGTCG
Found at i:28605 original size:52 final size:52
Alignment explanation
Indices: 28458--28597 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
28448 ATCATCCTTA
* ** *
28458 TCATCTTTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
* *
28510 TC-TTTCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-GCTTTT
1 TCATCT-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
*
28561 GTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAG
1 -TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
28598 TGTATTGGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
51 7 0.09
52 68 0.88
53 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
Found at i:28668 original size:165 final size:165
Alignment explanation
Indices: 28347--28672 Score: 365
Period size: 165 Copynumber: 2.0 Consensus size: 165
28337 TCAAATCTTT
* * *
28347 TTTCTTTAAGTCCGATATCGCTGGCCTTGAGTTAGCATATTGGCACCTTTCCGATTTTAAGCCCA
1 TTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCCGATTTTAAGCCCA
* * * * * *
28412 ATGTTGCTGGCCTTGAATTAGCACATTGACATTCTTATCATCCTTATCATCTTTAAGTCCAATGT
66 ATATCGCTGGCCTTGAATCAGCACATTGACACTCTTATCATCCTTATCATCTTTAAGCCCAATAT
* *
28477 CATTGGCCTTGAATCAGCACATTGGCACCTTTTTC
131 CACTGGCCTTGAACCAGCACATTGGCACCTTTTTC
* * *
28512 TTTC-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGTC-ATCTTTAAGCC
1 TTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-CCGAT-TTTAAGCC
*** * * *
28575 CAATATCGCTGGCCTTGAATCAGTGTATTGGTGC-CT-TTATCATTCTTCTCATCTTTAAGCCCA
64 CAATATCGCTGGCCTTGAATCAGCACATT-G-ACACTCTTATCATCCTTATCATCTTTAAGCCCA
* * *
28638 ATATCGCTGG-CTGTGAGCCAGCATATTGGCACCTT
127 ATATCACTGGCCT-TGAACCAGCACATTGGCACCTT
28673 CATTCTTTGC
Statistics
Matches: 133, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
164 44 0.33
165 86 0.65
166 2 0.02
167 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (165 bp):
TTTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCCGATTTTAAGCCCA
ATATCGCTGGCCTTGAATCAGCACATTGACACTCTTATCATCCTTATCATCTTTAAGCCCAATAT
CACTGGCCTTGAACCAGCACATTGGCACCTTTTTC
Found at i:29421 original size:20 final size:21
Alignment explanation
Indices: 29381--29453 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 21
29371 TTTTACAATT
*
29381 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
29402 TGTATCAATACATA-AGTAAA
1 TGTATCGATACATATAGTAAA
*
29422 TGTATCGATACATAT-CTGAAA
1 TGTATCGATACATATAGT-AAA
29443 TGTA-CGATACA
1 TGTATCGATACA
29454 AAACCACCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 27 0.59
21 19 0.41
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:29503 original size:20 final size:20
Alignment explanation
Indices: 29478--29536 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
29468 ATTGCCAAGG
29478 AAATGTATTGATACATTAAT
1 AAATGTATTGATACATTAAT
* *
29498 AAATGTATCGATACATACTTAT
1 AAATGTATTGATACAT--TAAT
*
29520 AATTGTATTGATACATT
1 AAATGTATTGATACATT
29537 TCTTATTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 16 0.48
22 17 0.52
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
AAATGTATTGATACATTAAT
Found at i:29599 original size:20 final size:20
Alignment explanation
Indices: 29574--29627 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
29564 TTTGACCTAC
29574 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
29594 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
29614 ATGTATCGATACAT
1 ATGTATCGATACAT
29628 GCAAGCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:33603 original size:13 final size:13
Alignment explanation
Indices: 33585--33610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33575 CAATTTTTTG
33585 TGTATCGATACAT
1 TGTATCGATACAT
33598 TGTATCGATACAT
1 TGTATCGATACAT
33611 ACTTGCTGTA
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:34920 original size:77 final size:76
Alignment explanation
Indices: 34794--34946 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 76
34784 CTTAAGATTT
* *
34794 GAGGCTATTGTAATACAAAAAATTGATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTTA
1 GAGGCTATTGCAATACAAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTTA
34859 TCCATTTACCC
66 TCCATTTACCC
*
34870 GAGGCTATTGCAATACAAAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAGGTGGAATTT
1 GAGGCTATTGCAATAC-AAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTT
34935 ATCCATTTACCC
65 ATCCATTTACCC
34947 CAGGATAATA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
76 15 0.21
77 58 0.79
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (76 bp):
GAGGCTATTGCAATACAAAAAATTAATTCTAGAACTTCTAGAAGAGTTTGAGAAAGTGGAATTTA
TCCATTTACCC
Found at i:37322 original size:21 final size:19
Alignment explanation
Indices: 37280--37322 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
37270 TTAACTTTTC
* *
37280 AATTTTAATTTGTTTAGAT
1 AATTTTAATTAGATTAGAT
37299 AATTCTTAATTAGATTATGAT
1 AATT-TTAATTAGATTA-GAT
37320 AAT
1 AAT
37323 GAATAGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (19 bp):
AATTTTAATTAGATTAGAT
Found at i:43798 original size:107 final size:108
Alignment explanation
Indices: 43687--43915 Score: 302
Period size: 108 Copynumber: 2.1 Consensus size: 108
43677 GATAAAAACG
* * * **
43687 GGGTTGGAGCATCCCCTCAAAAATAACGGGGTTTGAGTATCCCTGAT-GAT-GAAAAATCGATGT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCCCAATAG-TGGAAAAATCGATGT
**
43750 TTT-GGAAATAAAATTGGGGTTGGAGTATCCCCTAAAAAATAACA
65 TTTAGG-AATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACA
* **
43794 GGGTTGGAGTATCACCTCGGAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATGTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATGTT
** *
43859 TTAGGAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACG
66 TTAGGAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACA
43902 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
43916 TCGATGGTAA
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 40 0.38
108 63 0.60
109 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (108 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATGTT
TTAGGAATAAAATCAGGGTTGGAGTATCCCCTAAAAAATAACA
Found at i:43799 original size:28 final size:27
Alignment explanation
Indices: 43766--43837 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
43756 AATAAAATTG
43766 GGGTTGGAGTATCCCCTAAAAAATAAC
1 GGGTTGGAGTATCCCCTAAAAAATAAC
* ***
43793 AGGGTTGGAGTATCACCTCGGAAATAAC
1 -GGGTTGGAGTATCCCCTAAAAAATAAC
*
43821 GGGATTAGAGTATCCCC
1 GGG-TTGGAGTATCCCC
43838 AATAGTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 3 0.08
28 34 0.92
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTAAAAAATAAC
Found at i:43941 original size:80 final size:80
Alignment explanation
Indices: 43792--43950 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 80
43782 TAAAAAATAA
* * *
43792 CAGGGTTGGAGTATCACCTCGGAAATAACGGGATTAGAGTATCCCCAATAGTGGAAAAATCGATG
1 CAGGGTTGGAGTATCACCTCGAAAATAACGGGATTAGAGTATCCCCAATAGTGAAAAAATCGATA
**
43857 TTTTAGGAATAAAAT
66 TTTTAAAAATAAAAT
* * * * * * *
43872 CAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGT-AAATAAATTGAT
1 CAGGGTTGGAGTATCACCTCGAAAATAACGGGATTAGAGTATCCCCAATAGTGAAA-AAATCGAT
43936 ATTTTAAAAATAAAA
65 ATTTTAAAAATAAAA
43951 ACATCAATGA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.03
80 64 0.97
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (80 bp):
CAGGGTTGGAGTATCACCTCGAAAATAACGGGATTAGAGTATCCCCAATAGTGAAAAAATCGATA
TTTTAAAAATAAAAT
Found at i:47283 original size:51 final size:51
Alignment explanation
Indices: 47226--47324 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
47216 GAGTATCTCG
* * *
47226 AGATGAAAAATTTAGCATTTTGGAAATAAGAATGGGGTTAGAGTATCCCCA
1 AGATGAAAAATTTAACATTTTGAAAATAAAAATGGGGTTAGAGTATCCCCA
* * *
47277 AGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCC
1 AGATGAAAAATTTAACATTTTGAAAATAAAAATGGGGTTAGAGTATCC
47325 TTTCAGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (51 bp):
AGATGAAAAATTTAACATTTTGAAAATAAAAATGGGGTTAGAGTATCCCCA
Found at i:47360 original size:79 final size:79
Alignment explanation
Indices: 47260--47931 Score: 642
Period size: 79 Copynumber: 8.4 Consensus size: 79
47250 AATAAGAATG
* * **
47260 GGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
*
47325 TTTCAGAAATAACA
66 CTTCAGAAATAACA
* * * *
47339 GGGTTAGAGTATCCCCGAGATGAAAAATTTAATAGTTTGGAAATAAAAGCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTAT-C
* **
47404 CCTTC-GAAATTGATG
65 CCTTCAGAAA-TAACA
* * * ** *
47419 GGGTTGGAGTATCCCCAATATGAAAAATTTAATATTTTTAAAATAAAAATGGGGTTAGA-TATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
47483 CTTC-GAAAATAACA
66 CTTCAG-AAATAACA
* * * * *
47497 GGGTTAGACTATCCCCGAGATGAAAATTTTAATATTTTTG-AATTAAAAACGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATA-TTTTGAAAATAAAAACAGGGTTGGAGTAT-
47561 CCCTCAGATATCCCCTAGGAAATAACA
64 -CC-C---T-T---C-A-GAAATAACA
* * *
47588 AGGTTGGAATATCCCCGAGATG-AAAATTTCAATATTTTTG-AAATAAAAA-TGAGGTTGGAGTA
1 GGGTTGGAGTATCCCCGAGATGAAAAATTT-AATA-TTTTGAAAATAAAAACAG-GGTTGGAGTA
* *
47650 TCCCTTCAGAAGTAACG
63 TCCCTTCAGAAATAACA
* * *
47667 GGGTTGGAATATCCCCGAGATGAAAAA-TTGATATTTTTAGAAATAAAAAC-GAGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGA-AAATAAAAACAG-GGTTGGAGTAT
* * * * **
47730 CCCCTCGGAATTGATG
64 CCCTTCAGAAATAACA
** * *
47746 GGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGGAAATAAAAACAGGATTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
*
47811 CTTCAAAAATAACA
66 CTTCAGAAATAACA
* * * *
47825 GGGTTGGAGTATCCCCAAGATAAAAAATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
* *
47890 CCTCAAAAATAACA
66 CTTCAGAAATAACA
* *
47904 GGGTTGGAATATCCCCGAGATAAAAAAT
1 GGGTTGGAGTATCCCCGAGATGAAAAAT
47932 CGATATTTTT
Statistics
Matches: 498, Mismatches: 69, Indels: 52
0.80 0.11 0.08
Matches are distributed among these distances:
77 4 0.01
78 57 0.11
79 290 0.58
80 71 0.14
81 3 0.01
82 1 0.00
84 1 0.00
85 2 0.00
86 1 0.00
88 1 0.00
89 3 0.01
90 7 0.01
91 56 0.11
92 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCC
CTTCAGAAATAACA
Found at i:47552 original size:158 final size:158
Alignment explanation
Indices: 47257--47931 Score: 748
Period size: 158 Copynumber: 4.2 Consensus size: 158
47247 GGAAATAAGA
* *
47257 ATGGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
* *
47322 TCCTTTCAGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATAGTTTGGAAATAAAA
66 TCCCTTCAGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAAA
* *
47387 GCAGGGTTGGAGTATCCCCTTCGAAATTG
131 ACAAGGTTGGAGTATCCCC-TCGAAATTG
* * *
47416 ATGGGGTTGGAGTATCCCCAATATGAAAAATTTAATATTTTTAAAATAAAAATGGGGTTAGA-TA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
* * * *
47480 TCCCTTC-GAAAATAACAGGGTTAGACTATCCCCGAGATGAAAATTTTAATATTTTTGAATTAAA
66 TCCCTTCAG-AAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAA
** *
47544 AACGGGGTTGGAGTATCCCCTCAGATATCCCCTAGG
130 AACAAGGTTGGAGTATCCCCTC-GAAAT----T--G
** * * *
47580 AAATAACAAGGTTGGAATATCCCCGAGATG-AAAATTTCAATATTTTTG-AAATAAAAATGAGGT
1 --AT---GGGGTTGGAGTATCCCCAAGATGAAAAATTT-AATA-TTTTGAAAATAAAAATGGGGT
* * * * * *
47643 TGGAGTATCCCTTCAGAAGTAACGGGGTTGGAATATCCCCGAGATGAAAAA-TTGATATTTTTAG
59 TGGAGTATCCCTTCAGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATA-TTTTGG
* *
47707 AAATAAAAACGAGGTTGGAGTATCCCCTCGGAATTG
123 AAATAAAAACAAGGTTGGAGTATCCCCTCGAAATTG
* * ** *
47743 ATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGGAAATAAAAACAGGATTGGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
* * * *
47808 TCCCTTCAAAAATAACAGGGTTGGAGTATCCCCAAGATAAAAAATTTAATATTTTGGAAATAAAA
66 TCCCTTCAGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAAA
* * *
47873 ACAAGGTTGGAGTATCCCCTCAAAAATA
131 ACAAGGTTGGAGTATCCCCTCGAAATTG
** * * *
47901 ACAGGGTTGGAATATCCCCGAGATAAAAAAT
1 ATGGGGTTGGAGTATCCCCAAGATGAAAAAT
47932 CGATATTTTT
Statistics
Matches: 434, Mismatches: 61, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
157 8 0.02
158 219 0.50
159 69 0.16
161 2 0.00
162 1 0.00
163 1 0.00
164 1 0.00
165 1 0.00
166 2 0.00
168 7 0.02
169 47 0.11
170 75 0.17
171 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (158 bp):
ATGGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATGGGGTTGGAGTA
TCCCTTCAGAAATAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAATAAAA
ACAAGGTTGGAGTATCCCCTCGAAATTG
Found at i:47635 original size:91 final size:91
Alignment explanation
Indices: 47475--47735 Score: 278
Period size: 91 Copynumber: 3.0 Consensus size: 91
47465 AAATGGGGTT
* * * * * *
47475 AGATATCCCTTCGAAAATAACAGGGTTAGACTATCCCCGAGATGAAAATTTTAATATTTTTGAAT
1 AGATATCCCCTAGAAAATAACAAGGTTAGAATATCCCCGAGATGAAAATTTCAATATTTTTGAAA
*
47540 TAAAAACGGGGTTGGAGTATCCCCTC
66 TAAAAACGAGGTTGGAGTATCCCCTC
* *
47566 AGATATCCCCTAGGAAATAACAAGGTTGGAATATCCCCGAGATGAAAATTTCAATATTTTTGAAA
1 AGATATCCCCTAGAAAATAACAAGGTTAGAATATCCCCGAGATGAAAATTTCAATATTTTTGAAA
*
47631 TAAAAATGAGGTTGGAGTAT--CC-C
66 TAAAAACGAGGTTGGAGTATCCCCTC
* ** * * *
47654 ---T-T---C-AG-AAGTAACGGGGTTGGAATATCCCCGAGATGAAAAATT-GATATTTTTAGAA
1 AGATATCCCCTAGAAAATAACAAGGTTAGAATATCCCCGAGATGAAAATTTCAATATTTTT-GAA
47709 ATAAAAACGAGGTTGGAGTATCCCCTC
65 ATAAAAACGAGGTTGGAGTATCCCCTC
47736 GGAATTGATG
Statistics
Matches: 150, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
78 8 0.05
79 56 0.37
80 2 0.01
81 3 0.02
82 1 0.01
84 1 0.01
85 1 0.01
88 1 0.01
89 2 0.01
91 75 0.50
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (91 bp):
AGATATCCCCTAGAAAATAACAAGGTTAGAATATCCCCGAGATGAAAATTTCAATATTTTTGAAA
TAAAAACGAGGTTGGAGTATCCCCTC
Found at i:47874 original size:328 final size:328
Alignment explanation
Indices: 47269--47894 Score: 895
Period size: 328 Copynumber: 1.9 Consensus size: 328
47259 GGGGTTAGAG
*
47269 TATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCCTTTCAGAAA
1 TATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCCCTTCAGAAA
* * * *
47334 TAACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATAGTTTGGAAATAAAAGCAGGGTTGGAG
66 TAACAGGGTTAGAATATCCCCGAGATGAAAAATTGAATAGTTTAGAAATAAAAACAGGGTTGGAG
* * *
47399 TATCCCCTTCGAAATTGATGGGGTTGGAGTATCCCCAATATGAAAAATTTAATATTTTTAAAATA
131 TATCCCCTTCGAAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGAAAATA
** * * * * *
47464 AAAATGGGGTTAGATATCCCTTCGAAAATAACAGGGTTAGACTATCCCCGAGATGAAAATTTTAA
196 AAAACAGGATTAGATATCCCTTCAAAAATAACAGGGTTAGACTATCCCCAAGATAAAAAATTTAA
* * **
47529 TATTTTTGAATTAAAAACGGGGTTGGAGTATCCCCTCAGATATCCCCTAGGAAATAACAAGGTTG
261 TATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTCAGATATCCCCTAGGAAATAACAAGGTTG
47594 GAA
326 GAA
*
47597 TATCCCCGAGATG-AAAATTTCAATATTTTTG-AAATAAAAA-TGAGGTTGGAGTATCCCTTCAG
1 TATCCCCAAGATGAAAAATTT-AATA-TTTTGAAAATAAAAATTG-GGTTGGAGTATCCCTTCAG
* * * *
47659 AAGTAACGGGGTTGGAATATCCCCGAGATGAAAAATTG-ATATTTTTAGAAATAAAAAC-GAGGT
63 AAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTGAATA-GTTTAGAAATAAAAACAG-GGT
* *
47722 TGGAGTATCCCC-TCGGAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGG
126 TGGAGTATCCCCTTCGAAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGA
* * *
47786 AAATAAAAACAGGATTGGAGTATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCAAGATAAAAA
191 AAATAAAAACAGGATTAGA-TATCCCTTCAAAAATAACAGGGTTAGACTATCCCCAAGATAAAAA
47851 ATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTCA
255 ATTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTCA
47895 AAAATAACAG
Statistics
Matches: 263, Mismatches: 29, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
327 75 0.29
328 183 0.70
329 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (328 bp):
TATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAATTGGGTTGGAGTATCCCTTCAGAAA
TAACAGGGTTAGAATATCCCCGAGATGAAAAATTGAATAGTTTAGAAATAAAAACAGGGTTGGAG
TATCCCCTTCGAAATTGATGGGGTTGGAGTATCCCAAAGATGAAAAATTTAATATTTTGAAAATA
AAAACAGGATTAGATATCCCTTCAAAAATAACAGGGTTAGACTATCCCCAAGATAAAAAATTTAA
TATTTTGGAAATAAAAACAAGGTTGGAGTATCCCCTCAGATATCCCCTAGGAAATAACAAGGTTG
GAA
Found at i:50242 original size:20 final size:22
Alignment explanation
Indices: 50215--50273 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
50205 TCAAAAACCC
50215 AGAATGTATCGATACA-ATG--
1 AGAATGTATCGATACATATGTA
*
50234 AGAAATGTATCAATACATATGTA
1 AG-AATGTATCGATACATATGTA
*
50257 AGCATGTATCGATACAT
1 AGAATGTATCGATACAT
50274 TTTCTTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.39
21 3 0.09
22 13 0.39
23 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (22 bp):
AGAATGTATCGATACATATGTA
Found at i:50836 original size:13 final size:13
Alignment explanation
Indices: 50818--50874 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
50808 CATAAAGTGT
50818 TGTATCGATACAA
1 TGTATCGATACAA
50831 TGTATCGATACATAA
1 TGTATCGATAC--AA
50846 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
50863 TGTATCGATACA
1 TGTATCGATACA
50875 TAAATTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50853 original size:32 final size:32
Alignment explanation
Indices: 50798--50898 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
50788 TTCAACGATT
50798 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
50831 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
50863 TGTATCGATACATAAATTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
50895 TGTA
1 TGTA
50899 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:50855 original size:19 final size:17
Alignment explanation
Indices: 50795--50893 Score: 79
Period size: 19 Copynumber: 5.9 Consensus size: 17
50785 ATTTTCAACG
50795 ATTTGTATCGATACATAA
1 ATTTGTATCGATACAT-A
50813 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
50830 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
50845 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
50862 A--TGTATCGATACATAA
1 ATTTGTATCGATACAT-A
50878 ATTTTGTATCGATACA
1 A-TTTGTATCGATACA
50894 ATGTAAGCTA
Statistics
Matches: 67, Mismatches: 0, Indels: 27
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.33
15 2 0.03
16 2 0.03
17 4 0.06
18 1 0.01
19 24 0.36
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (17 bp):
ATTTGTATCGATACATA
Found at i:50954 original size:13 final size:13
Alignment explanation
Indices: 50936--50960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50926 ATTACTTAAA
50936 TGTATCGATACAT
1 TGTATCGATACAT
50949 TGTATCGATACA
1 TGTATCGATACA
50961 CTGATCTTTG
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:51025 original size:52 final size:52
Alignment explanation
Indices: 50969--51149 Score: 290
Period size: 52 Copynumber: 3.5 Consensus size: 52
50959 CACTGATCTT
* *
50969 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGAGACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
51021 TGTATCGATACATGTAGGCAAATTTGCCTAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
51073 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
51125 TGTATCGATACATGCAGGCGAATTT
1 TGTATCGATACATGCAGGCAAATTT
51150 TCATATTTCG
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 118 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:66435 original size:29 final size:29
Alignment explanation
Indices: 66368--66688 Score: 202
Period size: 30 Copynumber: 10.7 Consensus size: 29
66358 TCACCCTTCA
*
66368 AAAGCCCACAAGTTAGTGGCATCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTT-C
66398 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
66427 AAAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
66454 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * **
66484 GAAGCCCACAAGTCGGTGTAATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
66513 AAAGTCCACAACTCCGTGGCACTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * * *
66543 TTTTGTAAGCTCACAACTCCGTAGCACTCTTTTTCC
1 -----AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C
* * * * *
66579 TTTTAAGCCCATAAGTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
66611 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
66640 AAAGCCCACAAGTCAGTAGCAATC--TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
66668 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
66689 ACCTTCAAAA
Statistics
Matches: 233, Mismatches: 47, Indels: 25
0.76 0.15 0.08
Matches are distributed among these distances:
27 23 0.10
28 43 0.18
29 48 0.21
30 71 0.30
32 1 0.00
33 5 0.02
34 17 0.07
35 24 0.10
36 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:66482 original size:86 final size:87
Alignment explanation
Indices: 66362--66533 Score: 247
Period size: 86 Copynumber: 2.0 Consensus size: 87
66352 CATTCCTCAC
* * * * *
66362 CCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC
1 CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGAATCTTTTTC
*
66427 AAAGTCCACAAGTCAGTGGCAA
66 AAAGTCCACAACTCAGTGGCAA
* * *
66449 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGTAATCTTTTTC
1 CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGAATCTTTTTC
*
66513 AAAGTCCACAACTCCGTGGCA
66 AAAGTCCACAACTCAGTGGCA
66534 CTTTTTTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 70 0.93
87 5 0.07
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (87 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGAATCTTTTTC
AAAGTCCACAACTCAGTGGCAA
Found at i:66559 original size:35 final size:34
Alignment explanation
Indices: 66519--66586 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
66509 TTTCAAAGTC
* * *
66519 CACAACTCCGTGGCACTTTTTTTCTTTTGTAAGCT
1 CACAACTCCGTAGCACTCTTTTTCCTTT-TAAGCT
66554 CACAACTCCGTAGCACTCTTTTTCCTTTTAAGC
1 CACAACTCCGTAGCACTCTTTTTCCTTTTAAGC
66587 CCATAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (34 bp):
CACAACTCCGTAGCACTCTTTTTCCTTTTAAGCT
Found at i:66651 original size:28 final size:28
Alignment explanation
Indices: 66583--66734 Score: 173
Period size: 28 Copynumber: 5.3 Consensus size: 28
66573 TTTTCCTTTT
* * *
66583 AAGCCCATAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
66613 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
66641 AAGCCCACAAGTCAGTAGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
66669 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
66697 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
66726 AAGCCCACA
1 AAGCCCACA
66735 CAAGTTGGTG
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
27 3 0.03
28 71 0.66
29 13 0.12
30 20 0.19
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:66822 original size:48 final size:49
Alignment explanation
Indices: 66754--67093 Score: 393
Period size: 48 Copynumber: 7.0 Consensus size: 49
66744 GGCGTCTTCT
* * *
66754 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
66802 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
66850 TTTAAGTCCAATATCGCTGCCCTTAAATCAGCATATTGGCGCTTTTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTT--CATC
*
66902 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
66951 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACC-TCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
66999 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* ** * *
67047 TTTAAGACCAACGTCG-TCGGCCTTGAATCAGCACATTGTCACCTTCA
1 TTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTCA
67094 AGTCTAACTG
Statistics
Matches: 247, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.02
48 156 0.63
49 42 0.17
50 2 0.01
51 2 0.01
52 41 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:67028 original size:149 final size:148
Alignment explanation
Indices: 66754--67038 Score: 471
Period size: 149 Copynumber: 1.9 Consensus size: 148
66744 GGCGTCTTCT
*
66754 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGTCCAATGTAGC
1 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATGTAGC
* * *
66819 TGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGCCCTTAAATCAGCAT
66 TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGCCCTTAAATCAGCAT
66884 ATTGGCGCTTTTGGCACC
131 ATTGGCGCTTTTGGCACC
* * *
66902 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGTCCAATGTAG
* * *
66967 CTGGCCTTGAATCAGCACATTGGTACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCA
65 CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGCCCTTAAATCAGCA
67032 TATTGGC
130 TATTGGC
67039 ACCTTGTCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
148 42 0.33
149 84 0.67
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (148 bp):
TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGCCCTTAAATCAGCAT
ATTGGCGCTTTTGGCACC
Found at i:67855 original size:13 final size:13
Alignment explanation
Indices: 67837--67893 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
67827 CATAAAGTGT
67837 TGTATCGATACAA
1 TGTATCGATACAA
67850 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
67865 GTGTTGTATCCATACAA
1 ----TGTATCGATACAA
67882 TGTATCGATACA
1 TGTATCGATACA
67894 TAAATTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67872 original size:32 final size:32
Alignment explanation
Indices: 67817--67917 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
67807 TTCAACGATT
67817 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
67850 TGTATCGATACATAAGTGTTGTATCCATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
67882 TGTATCGATACATAAATTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
67914 TGTA
1 TGTA
67918 AGCTACTGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:67874 original size:19 final size:17
Alignment explanation
Indices: 67814--67912 Score: 70
Period size: 19 Copynumber: 5.9 Consensus size: 17
67804 ATTTTCAACG
67814 ATTTGTATCGATACATAA
1 ATTTGTATCGATACAT-A
67832 AGTGTTGTATCGATAC--A
1 A-T-TTGTATCGATACATA
67849 A--TGTATCGATACATA
1 ATTTGTATCGATACATA
*
67864 AGTGTTGTATCCATAC--A
1 A-T-TTGTATCGATACATA
67881 A--TGTATCGATACATAA
1 ATTTGTATCGATACAT-A
67897 ATTTTGTATCGATACA
1 A-TTTGTATCGATACA
67913 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 2, Indels: 27
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.32
15 2 0.03
16 2 0.03
17 4 0.06
18 1 0.02
19 23 0.35
20 12 0.18
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (17 bp):
ATTTGTATCGATACATA
Found at i:67973 original size:13 final size:13
Alignment explanation
Indices: 67955--67979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67945 ATTACTCAAA
67955 TGTATCGATACAT
1 TGTATCGATACAT
67968 TGTATCGATACA
1 TGTATCGATACA
67980 CTGATCTTTG
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:68080 original size:32 final size:32
Alignment explanation
Indices: 68039--68115 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
68029 ACACTATAAA
* *
68039 ATGTATCGATACATGCACGCAAATTTGCCTAG
1 ATGTATCGATACATGCACGCAAATTTACCCAG
*
68071 ATGTATCGATACATGCAGGCAAATTTACCCAG
1 ATGTATCGATACATGCACGCAAATTTACCCAG
68103 ATGTATCGATACA
1 ATGTATCGATACA
68116 CTATGAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (32 bp):
ATGTATCGATACATGCACGCAAATTTACCCAG
Found at i:68087 original size:84 final size:84
Alignment explanation
Indices: 67988--68148 Score: 286
Period size: 84 Copynumber: 1.9 Consensus size: 84
67978 CACTGATCTT
*
67988 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTATCGATACAT
68053 GCACGCAAATTTGCCTAGA
66 GCACGCAAATTTGCCTAGA
*
68072 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAATGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTATCGATACAT
* *
68137 GCAGGCGAATTT
66 GCACGCAAATTT
68149 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (84 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTATCGATACAT
GCACGCAAATTTGCCTAGA
Found at i:73016 original size:13 final size:13
Alignment explanation
Indices: 72998--73023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72988 ACATTAATAA
72998 TGTATCGATACAT
1 TGTATCGATACAT
73011 TGTATCGATACAT
1 TGTATCGATACAT
73024 GCAGCAAATT
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:76033 original size:50 final size:50
Alignment explanation
Indices: 75975--76087 Score: 167
Period size: 50 Copynumber: 2.3 Consensus size: 50
75965 TTATTTATTT
*
75975 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTGT-T-CACTG
1 TATCGATACATTCTGGGTTTTACCCAGATATATCGATACATT-TCTCCA-TG
* *
76025 TATTGATACATTCTGGGTTTTACCCAGATATATCGATATATTTCTCCATG
1 TATCGATACATTCTGGGTTTTACCCAGATATATCGATACATTTCTCCATG
76075 TATCGATACATTC
1 TATCGATACATTC
76088 AGGTATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.02
50 54 0.95
51 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (50 bp):
TATCGATACATTCTGGGTTTTACCCAGATATATCGATACATTTCTCCATG
Found at i:78532 original size:79 final size:78
Alignment explanation
Indices: 78430--78837 Score: 473
Period size: 79 Copynumber: 5.2 Consensus size: 78
78420 TTTACTTTCA
* * * *
78430 AGGGGATGCTCCAACCCTGGTTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCC-CGTTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAA
*
78495 CTCTATTATTTTTG
65 CCCTATTATTTTTG
* * * * *
78509 AGGGGATACTTCAACCCCAGTTTTATTTCCAAAACATTAATTTTCCATAATCGAGGATACTCTAA
1 AGGGGATACTCCAACCCC-GTTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAA
* *
78574 -CCTCGTTATTTTCG
65 CCCT-ATTATTTTTG
* * *
78588 AGGGGATACTTCAACCCCGATTTTATTTCCAAAACA-TGAATTTTCTATAATCAGGGATACTCCA
1 AGGGGATACTCCAACCCCG-TTTTATTTCCAAAACACTG-ATTTTCCATAATCGGGGATACTCCA
** *
78652 ACCCCGTTATTTCTG
64 ACCCTATTATTTTTG
* * * * *
78667 AGGGGATGCTCCAACCCTAGTTTTATTTTCAAAACA-TCGATTTTTCATAATCGAGGATACTCCA
1 AGGGGATACTCCAACCC-CGTTTTATTTCCAAAACACT-GATTTTCCATAATCGGGGATACTCCA
*
78731 ACCCCATTATTTTTG
64 ACCCTATTATTTTTG
* *
78746 AGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTGA-TTTCCAAAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCG-TTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAA
*
78810 CCCTATTATTTTCG
65 CCCTATTATTTTTG
78824 AGGGGATACTCCAA
1 AGGGGATACTCCAA
78838 TCCTATTATT
Statistics
Matches: 283, Mismatches: 37, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
78 52 0.18
79 226 0.80
80 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (78 bp):
AGGGGATACTCCAACCCCGTTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAAC
CCTATTATTTTTG
Found at i:78682 original size:158 final size:157
Alignment explanation
Indices: 78425--78837 Score: 551
Period size: 158 Copynumber: 2.6 Consensus size: 157
78415 ATGTTTTTAC
* * * * * *
78425 TTTCAAGGGGATGCTCCAACCCTGGTTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATAC
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCAAAATCGGGGATAC
* * *
78490 TCCAACTCTATTATTTTTGAGGGGATACTTCAACCCCAGTTTTATTTCCAAAACATTAATTTTCC
66 TCCAACCCTATTA-TTTTGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCC
* * *
78555 ATAATCGAGGATACTCTAACCTCGTTAT
130 ATAATCGAGGATACTCCAACCCCATTAT
* * * *
78583 TTTCGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACA-TGAATTTTCTATAATCAGGGATA
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTG-ATTTTCCAAAATCGGGGATA
** * * * * *
78647 CTCCAACCCCGTTATTTCTGAGGGGATGCTCCAACCCTAGTTTTATTTTCAAAACATCGATTTTT
65 CTCCAACCCTATTATTT-TGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTC
78712 CATAATCGAGGATACTCCAACCCCATTAT
129 CATAATCGAGGATACTCCAACCCCATTAT
* *
78741 TTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTGA-TTTCCAAAATCGGGGATAC
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCAAAATCGGGGATAC
78805 TCCAACCCTATTATTTTCGAGGGGATACTCCAA
66 TCCAACCCTATTATTTT-GAGGGGATACTCCAA
78838 TCCTATTATT
Statistics
Matches: 220, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
156 1 0.00
157 48 0.22
158 169 0.77
159 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (157 bp):
TTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCAAAATCGGGGATAC
TCCAACCCTATTATTTTGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCCA
TAATCGAGGATACTCCAACCCCATTAT
Found at i:78837 original size:28 final size:28
Alignment explanation
Indices: 78797--78867 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
78787 TTCCAAAATC
78797 GGGGATACTCCAACCCTATTATTTTCGA
1 GGGGATACTCCAACCCTATTATTTTCGA
* *
78825 GGGGATACTCCAATCCTATTATTTTTGA
1 GGGGATACTCCAACCCTATTATTTTCGA
78853 GGGGATACTCCAACC
1 GGGGATACTCCAACC
78868 TCGGTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (28 bp):
GGGGATACTCCAACCCTATTATTTTCGA
Found at i:78847 original size:106 final size:107
Alignment explanation
Indices: 78721--78948 Score: 343
Period size: 106 Copynumber: 2.1 Consensus size: 107
78711 TCATAATCGA
*
78721 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACA-CTG
1 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATC-A
** *
78785 A-TTTCCAAAATCGGGGATACTCCAACCCTATTATTTTCGAGG
65 ATTTTCCAAAATCGAAGATACTCCAACCCCATTATTTTCGAGG
* * * *
78827 GGATACTCCAATCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACATCAA
1 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAA
* *
78892 TTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGG
66 TTTTCCAAAATCGAAGATACTCCAACCCCATTATTTTCGAGG
78934 GGATACTCCAACCCC
1 GGATACTCCAACCCC
78949 GATTTTATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
106 58 0.54
107 50 0.46
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (107 bp):
GGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAA
TTTTCCAAAATCGAAGATACTCCAACCCCATTATTTTCGAGG
Found at i:78866 original size:185 final size:186
Alignment explanation
Indices: 78641--79027 Score: 580
Period size: 185 Copynumber: 2.1 Consensus size: 186
78631 TCTATAATCA
* *
78641 GGGATACTCCAACCCCGTTATTTCTGAGGGGATGCTCCAACC-CTAGTTTTATTTTCAAAACATC
1 GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTC-AGTTTTATTTTCAAAACATC
* * *
78705 GATTTTTCATAATCGAGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTT
65 AATTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTT
* ** *
78770 ATTTTCAAAACACTGA-TTTCCAAAATCGGGGATACTCCAACCCTATTATTTTCGAG
130 ATTTCCAAAACACCAATTTTCCAAAATCGAGGATACTCCAACCCTATTATTTTCGAG
* * * *
78826 GGGATACTCCAATCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACATCA
1 GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACATCA
78891 ATTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTA
66 ATTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTA
** * *
78956 TTTCCAAAACACCAATTTTTTATAATCGAGGATACTCCAACCCTGTTATTTTCGAG
131 TTTCCAAAACACCAATTTTCCAAAATCGAGGATACTCCAACCCTATTATTTTCGAG
* *
79012 GGGATGCTTCAACCCC
1 GGGATACTCCAACCCC
79028 GATTTTATTT
Statistics
Matches: 179, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
185 131 0.73
186 48 0.27
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (186 bp):
GGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACATCA
ATTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTA
TTTCCAAAACACCAATTTTCCAAAATCGAGGATACTCCAACCCTATTATTTTCGAG
Found at i:78925 original size:79 final size:79
Alignment explanation
Indices: 78827--79438 Score: 613
Period size: 79 Copynumber: 7.7 Consensus size: 79
78817 ATTTTCGAGG
* ** * * * * *
78827 GGATACTCCAATCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACATCAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
78892 TTTTTCATAATCGA
66 TTTTTCATAATCGA
* *
78906 AGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
*
78971 TTTTTTATAATCGA
66 TTTTTCATAATCGA
* * *
78985 GGATACTCCAACCCTGTTATTTTCGAGGGGATGCTTCAACCCCGATTTTATTTCCCAAAA-ACCA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT-CCAAAACACCA
*
79049 ATTTTTCATAATCGG
65 ATTTTTCATAATCGA
* * * * * *
79064 GGATTCTTCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
79129 TTTTTCACAATCGG
66 TTTTTCATAATCGA
* * * * * * * * *
79143 GGATACTCCAACCTCATT-TTTTCTAAAGGGATACTACAATCTCGGTTTTATTTCCAAAACATCA
1 GGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
*
79207 ATTTTCCATAATCG-
65 ATTTTTCATAATCGA
* * * *
79221 GAGATACTCCAACTCTGTTATTTTCGAGGCGATACTCCAACCCC-AGTTTTATTTCCAAAACACT
1 G-GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACC
*
79285 AATTTTTCACAATC-A
64 AATTTTTCATAATCGA
* * * * ** **
79300 GGGATATTCCAACCTCGTTGTTTTCGAGGAGATACTCCAACCCCGATTTTATTTTTAAAACACTG
1 -GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
* * *
79365 ATTTTTCACAATTGG
65 ATTTTTCATAATCGA
* ** * * * * * * *
79380 GGATACTCAAACCTTGTTATTTCCAAGGGAATACACCAACCCTGGTTTTATCTCCAAAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAA
79439 TATTAAACTT
Statistics
Matches: 440, Mismatches: 83, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
78 11 0.03
79 416 0.95
80 13 0.03
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
TTTTTCATAATCGA
Found at i:79033 original size:264 final size:265
Alignment explanation
Indices: 78579--79102 Score: 702
Period size: 264 Copynumber: 2.0 Consensus size: 265
78569 TCTAACCTCG
* * *
78579 TTATTTTCGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACATGAATTTTCTATAATCAGGG
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCTATAATCAGAG
* * * * * *
78644 ATACTCCAACCCCGTTATTTCTGAGGGGATGCTCCAACCCTAGTTTTATTTTCAAAACATCGATT
66 ATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCGAGTTTTATTTCCAAAACACCAATT
*
78709 TTTCATAATCGAGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTT
131 TTTCATAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT
* **
78774 -TCAAAACACTGA-TTTCCAAAATCGGGGATACTCCAAC-CCTATTATTTTCGAGGGGATACTCC
196 CCCAAAA-ACCAATTTTCCAAAATCGGGGATACTCCAACTCC-ATTATTTTCGAGGGGATACTCC
78836 AATCCTA
259 AATCCTA
* * * *
78843 TTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACATCAATTTT-TCATAATC-GA
1 TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCT-ATAATCAG-
78906 AGATACTCCAACCCCATTATTT-TCGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACC
64 AGATACTCCAACCCCATTATTTCT-GAGGGGATACTCCAA-CCCGAGTTTTATTTCCAAAACACC
* ** * *
78969 AATTTTTTATAATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATGCTTCAACCCCGATTTT
127 AATTTTTCATAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTT
* * * * *
79034 ATTTCCCAAAAACCAATTTTTCATAATCGGGGATTCTTCAACTCCGTTATTTTCGAGGGGATACT
192 ATTTCCCAAAAACCAATTTTCCAAAATCGGGGATACTCCAACTCCATTATTTTCGAGGGGATACT
79099 CCAA
257 CCAA
79103 CCCCGATTTC
Statistics
Matches: 226, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
263 3 0.01
264 168 0.74
265 53 0.23
266 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (265 bp):
TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCTATAATCAGAG
ATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCGAGTTTTATTTCCAAAACACCAATT
TTTCATAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT
CCCAAAAACCAATTTTCCAAAATCGGGGATACTCCAACTCCATTATTTTCGAGGGGATACTCCAA
TCCTA
Found at i:79108 original size:343 final size:344
Alignment explanation
Indices: 78482--79155 Score: 991
Period size: 343 Copynumber: 2.0 Consensus size: 344
78472 TTCCACAATC
* *
78482 GGGGATACTCCAACTCTATTATTTTTGAGGGGATACTTCAACCCCAGTTTTATTTCCAAAACATT
1 GGGGATACTCCAACTCTATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATC
* * * * *
78547 AATTTTCCATAATCGAGGATACTCTAACCTCGTTATTTTCGAGGGGATACTTCAACCCCGATTTT
66 AATTTTCCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTT
**
78612 ATTTCCAAAACATGAATTTTCTATAATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGATGCT
131 ATTTCCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGATGCT
* * * *
78677 CCAACCCTAGTTTTATTTTCAAAACATCGATTTTTCATAATCGAGGATACTCCAACCCCATTATT
196 CCAACCCGAGTTTTATTTCCAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCATTATT
* * *
78742 TTTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTGA-TTTCCAAAATCGGGGATACT
261 TTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTCCAAAATCGGGGATACT
78806 CCAACCCTATTATTTTCGA
326 CCAACCCTATTATTTTCGA
* * *
78825 GGGGATACTCCAA-TCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACAT
1 GGGGATACTCCAACT-CTATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACAT
*
78889 CAATTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTT
65 CAATTTTCCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTT
* *
78954 TATTTCCAAAACACCAATTTTTTATAATC-GAGGATACTCCAACCCTGTTATTT-TCGAGGGGAT
130 TATTTCCAAAACACCAATTTTCTATAATCAG-GGATACTCCAACCCCGTTATTTCT-GAGGGGAT
* * * * * *
79017 GCTTCAACCCCGA-TTTTATTTCCCAAAA-ACCAATTTTTCATAATCGGGGATTCTTCAACTCCG
193 GCTCCAA-CCCGAGTTTTATTT-CCAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCA
* *
79080 TTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTTCACAATCGGGG
256 TTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTCCAAAATCGGGG
79145 ATACTCCAACC
321 ATACTCCAACC
79156 TCATTTTTTC
Statistics
Matches: 295, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
342 3 0.01
343 259 0.88
344 33 0.11
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (344 bp):
GGGGATACTCCAACTCTATTATTTTTGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACATC
AATTTTCCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTT
ATTTCCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGATGCT
CCAACCCGAGTTTTATTTCCAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCATTATT
TTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCGATTTTCCAAAATCGGGGATACT
CCAACCCTATTATTTTCGA
Found at i:79384 original size:237 final size:237
Alignment explanation
Indices: 78826--79438 Score: 706
Period size: 237 Copynumber: 2.6 Consensus size: 237
78816 TATTTTCGAG
* * * * *
78826 GGGATACTCCAA-TCCTATTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACA-T
1 GGGATTCTCCAACTCC-GTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
* * ** * * * *
78889 CAATTTTTCATAATCGAAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTT
65 -GATTTTTCACAATCGGGGATACTCCAACCTCATTATTTTCAAAGGGATACTACAACCCCGATTT
** * *
78954 TATTTCCAAAACACCAATTTTTTATAATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATGC
129 TATTTCCAAAACACCAATTTTCCATAATCGAGGATACTCCAACCCTGTTATTTTCGAGGCGATAC
* * *
79019 TTCAACCCCGATTTTATTTCCCAAAAACCAATTTTTCATAATCG
194 TCCAACCCCGATTTTATTTCCCAAAAACCAATTTTTCACAATCA
* * *
79063 GGGATTCTTCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCG
1 GGGATTCTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTG
* * *
79128 ATTTTTCACAATCGGGGATACTCCAACCTCATT-TTTTCTAAAGGGATACTACAATCTCGGTTTT
66 ATTTTTCACAATCGGGGATACTCCAACCTCATTATTTTC-AAAGGGATACTACAACCCCGATTTT
* *
79192 ATTTCCAAAACATCAATTTTCCATAATCG-GAGATACTCCAACTCTGTTATTTTCGAGGCGATAC
130 ATTTCCAAAACACCAATTTTCCATAATCGAG-GATACTCCAACCCTGTTATTTTCGAGGCGATAC
*
79256 TCCAACCCC-AGTTTTATTT-CCAAAACACTAATTTTTCACAATCA
194 TCCAACCCCGA-TTTTATTTCCCAAAA-ACCAATTTTTCACAATCA
* * *
79300 GGGATAT-TCCAAC-CTCGTTGTTTTCGAGGAGATACTCCAACCCCGATTTTATTTTTAAAACAC
1 GGGAT-TCTCCAACTC-CGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * ** * * *
79363 TGATTTTTCACAATTGGGGATACTCAAACCTTGTTA-TTTCCAAGGGAATAC-ACCAACCCTGGT
64 TGATTTTTCACAATCGGGGATACTCCAACCTCATTATTTTCAAAGGG-ATACTA-CAACCCCGAT
*
79426 TTTATCTCCAAAA
127 TTTATTTCCAAAA
79439 TATTAAACTT
Statistics
Matches: 321, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
236 20 0.06
237 297 0.93
238 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (237 bp):
GGGATTCTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTG
ATTTTTCACAATCGGGGATACTCCAACCTCATTATTTTCAAAGGGATACTACAACCCCGATTTTA
TTTCCAAAACACCAATTTTCCATAATCGAGGATACTCCAACCCTGTTATTTTCGAGGCGATACTC
CAACCCCGATTTTATTTCCCAAAAACCAATTTTTCACAATCA
Found at i:79688 original size:23 final size:22
Alignment explanation
Indices: 79657--79705 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
79647 CGTCCCTCTT
**
79657 TTTTATGTACTTTTGTGTGTTTA
1 TTTTATGTAAATTTGTGTG-TTA
* *
79680 TTTTGTGTAAATTTGTTTGTTA
1 TTTTATGTAAATTTGTGTGTTA
79702 TTTT
1 TTTT
79706 CCTTTTTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.14, C:0.02, G:0.16, T:0.67
Consensus pattern (22 bp):
TTTTATGTAAATTTGTGTGTTA
Found at i:80907 original size:13 final size:13
Alignment explanation
Indices: 80889--80914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80879 CACACCCAGA
80889 TGTATCGATACAT
1 TGTATCGATACAT
80902 TGTATCGATACAT
1 TGTATCGATACAT
80915 GGACAATTGT
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:89010 original size:22 final size:22
Alignment explanation
Indices: 88982--89028 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
88972 CGATAATAAA
* *
88982 TTTTTATCAAGGGGGAGAAATT
1 TTTTTATCAAAGGGGAAAAATT
89004 TTTTTATCAAAGGGGAAAAATT
1 TTTTTATCAAAGGGGAAAAATT
89026 TTT
1 TTT
89029 AACGAGAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
TTTTTATCAAAGGGGAAAAATT
Found at i:89617 original size:13 final size:13
Alignment explanation
Indices: 89599--89625 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89589 ACATTATGCT
89599 TTGTATCGATACA
1 TTGTATCGATACA
89612 TTGTATCGATACA
1 TTGTATCGATACA
89625 T
1 T
89626 GTTCATTATA
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:89659 original size:20 final size:19
Alignment explanation
Indices: 89609--89665 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
89599 TTGTATCGAT
*
89609 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* * *
89628 TCATTATATCGATACGTGG
1 ACATTGTATCGATACATGG
89647 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
89666 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:89759 original size:33 final size:33
Alignment explanation
Indices: 89695--89759 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
89685 TACCACTATT
**
89695 TGTATCGATACATGGCACATTGTATTGATACAA
1 TGTATCGATACATGGCACATTGTATCAATACAA
89728 TGTATCGATACATGATG-A-ATTGTATCAATACA
1 TGTATCGATACATG--GCACATTGTATCAATACA
89760 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCAATACAA
Found at i:99150 original size:1 final size:1
Alignment explanation
Indices: 99144--99210 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
99134 CAATTTTCTT
* * * * * * * * *
99144 AAAAAAATAAAAAATAAAAAACAAAAAACAAAACAAAAAACAAAAAAAAAAGAGAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
99209 AA
1 AA
99211 GAGAAAAGAA
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.06, G:0.04, T:0.03
Consensus pattern (1 bp):
A
Found at i:99169 original size:12 final size:12
Alignment explanation
Indices: 99161--99194 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
99151 TAAAAAATAA
99161 AAAACAAAAAAC
1 AAAACAAAAAAC
99173 AAAACAAAAAAC
1 AAAACAAAAAAC
99185 AAAA-AAAAAA
1 AAAACAAAAAA
99195 GAGAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAC
Found at i:99176 original size:19 final size:19
Alignment explanation
Indices: 99146--99210 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
99136 ATTTTCTTAA
*
99146 AAAAATAAAAAATAAAAAAC
1 AAAAA-AAAAAACAAAAAAC
*
99166 AAAAAACAAAACAAAAAAC
1 AAAAAAAAAAACAAAAAAC
* *
99185 AAAAAAAAAAGAGAAAAAAG
1 AAAAAAAAAA-ACAAAAAAC
99205 AAAAAA
1 AAAAAA
99211 GAGAAAAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 21 0.54
20 18 0.46
ACGTcount: A:0.86, C:0.06, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAACAAAAAAC
Found at i:99208 original size:16 final size:15
Alignment explanation
Indices: 99185--99222 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
99175 AACAAAAAAC
99185 AAAAAAAAAAGAGAA
1 AAAAAAAAAAGAGAA
99200 AAAAGAAAAAAGAGAA
1 AAAA-AAAAAAGAGAA
99216 AAGAAAA
1 AA-AAAA
99223 GAACTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAGAA
Found at i:99211 original size:7 final size:7
Alignment explanation
Indices: 99145--99222 Score: 63
Period size: 7 Copynumber: 11.6 Consensus size: 7
99135 AATTTTCTTA
*
99145 AAAAAAT
1 AAAAAAG
*
99152 AAAAAAT
1 AAAAAAG
99159 AAAAAA-
1 AAAAAAG
*
99165 CAAAAA-
1 AAAAAAG
* *
99171 ACAAAAC
1 AAAAAAG
*
99178 AAAAAAC
1 AAAAAAG
99185 AAAAAA-
1 AAAAAAG
*
99191 AAAAGAG
1 AAAAAAG
99198 AAAAAAG
1 AAAAAAG
99205 AAAAAAG
1 AAAAAAG
*
99212 AGAAAAG
1 AAAAAAG
99219 AAAA
1 AAAA
99223 GAACTTGCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
6 14 0.23
7 47 0.77
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:100618 original size:13 final size:13
Alignment explanation
Indices: 100600--100626 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100590 AAATTCTTCA
100600 TGTATCGATACAT
1 TGTATCGATACAT
100613 TGTATCGATACAT
1 TGTATCGATACAT
100626 T
1 T
100627 ATGTCATGTA
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):
TGTATCGATACAT
Found at i:100701 original size:20 final size:19
Alignment explanation
Indices: 100672--100727 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
100662 TACTGCCAGT
* *
100672 TTCATATATCGATACATTTG
1 TTCATGTATCGATACA-ATG
100692 TTCATGTATCGATACAATG
1 TTCATGTATCGATACAATG
**
100711 AACATGTATCGATACAA
1 TTCATGTATCGATACAA
100728 AGCATAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:100718 original size:19 final size:18
Alignment explanation
Indices: 100695--100766 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 18
100685 ACATTTGTTC
100695 ATGTATCGATACAATGAA
1 ATGTATCGATACAATGAA
*
100713 CATGTATCGATACAAAGCATA
1 -ATGTATCGATACAATG-A-A
* *
100734 ATATATCGATACATCTGAA
1 ATGTATCGATACA-ATGAA
100753 AGTGTATCGATACA
1 A-TGTATCGATACA
100767 TACAAGGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 17 0.39
20 25 0.57
21 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (18 bp):
ATGTATCGATACAATGAA
Found at i:101696 original size:33 final size:33
Alignment explanation
Indices: 101654--101720 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
101644 AGGAGTACTA
* *
101654 AAGTGCTCATCCATGCGCTGTGAGAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
* *
101687 AAGTGCTCATTCATGTGCTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
101720 A
1 A
101721 TCAACTCTCG
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:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (33 bp):
AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
Found at i:103677 original size:32 final size:30
Alignment explanation
Indices: 103641--103699 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
103631 GAAATCAAAT
103641 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
103673 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
103700 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:103998 original size:13 final size:13
Alignment explanation
Indices: 103980--104005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103970 AATTTTTTTG
103980 TGTATCGATACAT
1 TGTATCGATACAT
103993 TGTATCGATACAT
1 TGTATCGATACAT
104006 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:106603 original size:13 final size:13
Alignment explanation
Indices: 106585--106635 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
106575 ATAATCTCCC
*
106585 TGTATCGATACAG
1 TGTATCGATACAT
106598 TGTATCGATACAT
1 TGTATCGATACAT
106611 TGTATCGATACAT
1 TGTATCGATACAT
106624 TGTATCGATACA
1 TGTATCGATACA
106636 AAGAAAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:108735 original size:15 final size:15
Alignment explanation
Indices: 108715--108745 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
108705 ATTTCGTTTG
*
108715 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
108730 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
108745 G
1 G
108746 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:110577 original size:21 final size:21
Alignment explanation
Indices: 110548--110592 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
110538 AAGTTTTTAT
*
110548 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
110568 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
110590 TTT
1 TTT
110593 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:113052 original size:28 final size:28
Alignment explanation
Indices: 112971--113052 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
112961 TTTTGGAGAT
*
112971 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
112999 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
113027 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
113053 TGTAAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:113104 original size:51 final size:50
Alignment explanation
Indices: 113035--113204 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
113025 GAAATAACGA
*
113035 GGTTGGAGTATCCTCGATTGTAAAAAATTGGTATTTT-AGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-TAAAAAATTGGTATTTTGA-AAATAAAATCGG
** * * * *
113086 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTTAA--A-AAATTGGTATTTTGAAAATAAAATCGG
* * * *
113139 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATT-TAAAAAATTGGTATTTTGAAAATAAAATCGG
113190 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
113205 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
50 2 0.02
51 52 0.54
52 2 0.02
53 39 0.40
54 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTTAAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:115748 original size:13 final size:13
Alignment explanation
Indices: 115730--115755 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115720 ACAAAGATCC
115730 ATGTATCGATACA
1 ATGTATCGATACA
115743 ATGTATCGATACA
1 ATGTATCGATACA
115756 CAGAAAAATG
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:115751 original size:33 final size:33
Alignment explanation
Indices: 115709--115775 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
115699 AAAATTTCCA
***
115709 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
115742 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
115775 A
1 A
115776 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:115819 original size:19 final size:18
Alignment explanation
Indices: 115795--115862 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
115785 CAGTAGCTAA
115795 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
115814 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
115829 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
115846 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
115863 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:115835 original size:13 final size:13
Alignment explanation
Indices: 115817--115841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115807 ACAATACTTA
115817 TGTATCGATACAT
1 TGTATCGATACAT
115830 TGTATCGATACA
1 TGTATCGATACA
115842 AAACTTATGT
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:115839 original size:32 final size:32
Alignment explanation
Indices: 115798--115860 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
115788 TAGCTAATTA
*
115798 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
115830 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
115861 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:115941 original size:21 final size:21
Alignment explanation
Indices: 115917--115973 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
115907 CATTTGTAGG
115917 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
115938 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
115959 ATGTATCGATACATT
1 ATGTATCGATACATT
115974 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:116668 original size:55 final size:55
Alignment explanation
Indices: 116584--117314 Score: 1117
Period size: 55 Copynumber: 13.3 Consensus size: 55
116574 ATAAATTGTA
* * * * * *
116584 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
116639 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
116694 TCCTGCTCTTTGGGGAATG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
116748 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
116803 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
116858 TCCTGCTCTTTG-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
116912 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
116967 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
117022 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
117077 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
117132 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
117187 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
117242 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
117297 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
117315 AAAAAGCGGA
Statistics
Matches: 633, Mismatches: 26, Indels: 34
0.91 0.04 0.05
Matches are distributed among these distances:
53 4 0.01
54 116 0.18
55 497 0.79
56 14 0.02
57 2 0.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:207037 original size:20 final size:21
Alignment explanation
Indices: 207012--207065 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
207002 GTTTGATGTA
*
207012 ATGTATCGATACAATTCT-TC
1 ATGTATCGATACAATTCTGCC
* *
207032 ATGTATCGATAC-GTTGTGCC
1 ATGTATCGATACAATTCTGCC
207052 ATGTATCGATACAA
1 ATGTATCGATACAA
207066 ATAGTGGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTCTGCC
Found at i:207117 original size:20 final size:20
Alignment explanation
Indices: 207092--207129 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
207082 TACTACCAGT
207092 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACATTTG
207112 TTCATGTATCGATACATT
1 TTCATGTATCGATACATT
207130 GTATTGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:207244 original size:20 final size:20
Alignment explanation
Indices: 207219--207270 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
207209 GTCAACCATA
207219 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
* * *
207239 ATGTATCAATATAAATACTT
1 ATGTATCGATACAAATACCT
207259 ATGTATCGATAC
1 ATGTATCGATAC
207271 TTTGAAGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAAATACCT
Found at i:207957 original size:61 final size:62
Alignment explanation
Indices: 207829--208340 Score: 596
Period size: 61 Copynumber: 8.4 Consensus size: 62
207819 AAACCTTTTA
*
207829 ACCTTTCAGTCCTCAAAGAGCAAGG--CGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGC-AGGAACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
207890 ACCTTTTAGTCCTCAAAGAGCAGGACACTTCTTTT-CTGTTAAAGCACACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGA-ACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * **
207952 ACTTTTTAGTCCTCAAAGAGCAGGACACTTCTTTT-CTGCTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGA-ACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
** * * *
208014 GTCTTTCAATCCTCAAAGAGCAGG-ACGTCTTTTCCTTTTAAAGCCCACACATGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGAACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
208075 ACCTTTCAGTCCTCATAGAGCAGG-ACGTCTTTTCCTTTTAAAGCCCACACCAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGAACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
208136 ACCTTTTAGTCCTCAAAGAGTAAG-ATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGAACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * *
208197 ACATTTCAATCCTCAAAGAGCAGG-ACG-CGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGAACGTC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * ** *
208258 ACATTGTAGTCCTCAAAGAGCAAG-ATGT-TTTCTTCTTGCAAAGCCCACATAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGAACGTCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC
*
208319 ACCTTTTAGTCCTCAAAAAGCA
1 ACCTTTTAGTCCTCAAAGAGCA
208341 AGATACACTT
Statistics
Matches: 395, Mismatches: 49, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
60 14 0.04
61 271 0.69
62 103 0.26
63 7 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
ACCTTTTAGTCCTCAAAGAGCAGGAACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:208233 original size:183 final size:181
Alignment explanation
Indices: 207831--208351 Score: 672
Period size: 183 Copynumber: 2.8 Consensus size: 181
207821 ACCTTTTAAC
*
207831 CTTTCAGTCCTCAAAGAGCAAGG-CGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTCAATCCTCAAAGAGC-AGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-T
* * * *
207895 TTAGTCCTCAAAGAGCAGGACACTTCTTTTCTGTTAAAGCACACACAAGTTGGTGGCACTTTTTA
64 TTAGTCCTCAAAGAGCAGG--ACGTCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
* * *
207960 GTCCTCAAAGAGCAGGACACTTCTTTTCTGCTAAAGCCCACACAAGTTGGTGGCGT
127 GTCCTCAAAGAGCAAGATAC-TCTTTTCTGCTAAAGCCCACACAAGTTGGTGGCGA
*
208016 CTTTCAATCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACATGTTGGTGGCACCTTT
1 CTTTCAATCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
208081 CAGTCCTCATAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACCAGTTGGTGGCACCTTTTAGT
66 -AGTCCTCAAAGAGCAGGACGTCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* * **
208146 CCTCAAAGAGTAAGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC-A
129 CCTCAAAGAGCAAGATACTCTTTT-CTGCTAAAGCCCACACAAGTTGGTGGCGA
* * *
208198 CATTTCAATCCTCAAAGAGCAGGACG-CGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACAT
1 C-TTTCAATCCTCAAAGAGCAGGACGTC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * ** *
208262 TGTAGTCCTCAAAGAGCAAGATGTTTTCTTCTTGCAAAGCCCACATAAGTTGGTGGCACCTTTTA
64 T-TAGTCCTCAAAGAGCAGGACGTCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
* *
208327 GTCCTCAAAAAGCAAGATACACTTT
127 GTCCTCAAAGAGCAAGATACTCTTT
208352 ATTTCCTTCC
Statistics
Matches: 297, Mismatches: 30, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
182 7 0.02
183 158 0.53
184 60 0.20
185 72 0.24
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (181 bp):
CTTTCAATCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
AGTCCTCAAAGAGCAGGACGTCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
TCAAAGAGCAAGATACTCTTTTCTGCTAAAGCCCACACAAGTTGGTGGCGA
Found at i:208478 original size:42 final size:42
Alignment explanation
Indices: 208323--208553 Score: 189
Period size: 42 Copynumber: 5.4 Consensus size: 42
208313 GGTGGCACCT
* * **
208323 TTTAGTCCTCAAAAAGCAAGATACACTTTATTTCCTTCCTTTC-CC
1 TTTA-TCCTCAAAGAGCAGGACGCACTTTATTT-CTT--TTTCTCC
* * *
208368 TTTTGTCCTCAAAGAGCAGGACGCACTCTATTTCCTTTTC-CC
1 -TTTATCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCC
* *
208410 TTTGTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCTCC
1 TTTATCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCC
* * * * * *
208452 TTTATCCTCAAACAGTAAGACACACTTAATTTCTTTCTTTTCC
1 TTTATCCTCAAAGAGCAGGACGCACTTTATTTCTTT-TTCTCC
** * * *
208495 TTGGTCCTCAAAGAGTAGGAGGCATTTTATTTCCTTTTT-TCC
1 TTTATCCTCAAAGAGCAGGACGCACTTTATTT-CTTTTTCTCC
*
208537 TTTATCCTCGAAGAGCA
1 TTTATCCTCAAAGAGCA
208554 AGATGTATTC
Statistics
Matches: 152, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
41 36 0.24
42 53 0.35
43 31 0.20
44 6 0.04
45 23 0.15
46 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (42 bp):
TTTATCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTCTCC
Found at i:211831 original size:27 final size:27
Alignment explanation
Indices: 211764--211834 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
211754 TTTATTCATC
*
211764 GGGGACACTCCAAACCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
*
211791 GGGGACACTCCAACCCCATTCCTCTGA
1 GGGGACACTCCAACCCCATTCCTCCGA
211818 GGGGACACTCCAACCCC
1 GGGGACACTCCAACCCC
211835 GTTTTCAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.24, C:0.42, G:0.20, T:0.14
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:215221 original size:78 final size:79
Alignment explanation
Indices: 215088--215280 Score: 234
Period size: 78 Copynumber: 2.5 Consensus size: 79
215078 ATGTTTTTAC
215088 TTCTGAGGGGATACTCCAACCCC-AGTTTTATTTCCAAAACACCGATGTTCCACAATCAG-GGAT
1 TTCTGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCGATGTTCCACAAT-AGAGGAT
*
215151 ACTCTAACCC-ATTAT
64 ACTCCAACCCTATTAT
* * * * * *
215166 TTCTGAGGGGATACTCCAACCCCGATTTTATTT-TAGAAACATCTATTTTCTACAATTGAGGATA
1 TTCTGAGGGGATACTCCAACCCCGATTTTATTTCCA-AAACACCGATGTTCCACAATAGAGGATA
*
215230 CTCCAACCCTGTTAT
65 CTCCAACCCTATTAT
*
215245 TT-TCGAGGAGATACTCCAACCCCGATTTTATTTCCA
1 TTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCA
215281 CAATCCTGTT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
77 2 0.02
78 61 0.62
79 35 0.35
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
TTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATGTTCCACAATAGAGGATAC
TCCAACCCTATTAT
Found at i:215326 original size:127 final size:128
Alignment explanation
Indices: 215165--215404 Score: 310
Period size: 127 Copynumber: 1.9 Consensus size: 128
215155 TAACCCATTA
* * *
215165 TTTCTGAGGGGATACTCCAACCCCGATTTTATTTT-AGAAACATC-TA-TTTTCTACAATTGAGG
1 TTTCTGAGGGGATACTCCAACCCCGATTTCATTTTCA-AAACA-CAAATTTTTC-ACAATCGAGG
**
215227 ATACTCCAACCCTGTTATTTTCGA-GGAGATACTCCAACCCCGATTTTATTTCCACAATCCTGTT
63 ATACTCCAACCCCATTATTTTCGACGG-GATACTCCAACCCCGATTTTATTTCCACAATCCTGTT
215291 AT
127 AT
* * *
215293 TTTC-GAGGGGATGCTTCAACCCCGGTTTCATTTTCAAAACACAAATTTTTCACAATCGAGGATA
1 TTTCTGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACAAATTTTTCACAATCGAGGATA
** *
215357 CTCCAACCCCATTATTTTCGACGGGATACTTTAACCCTGATTTTATTT
66 CTCCAACCCCATTATTTTCGACGGGATACTCCAACCCCGATTTTATTT
215405 TCAAAACACT
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
126 1 0.01
127 84 0.87
128 12 0.12
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (128 bp):
TTTCTGAGGGGATACTCCAACCCCGATTTCATTTTCAAAACACAAATTTTTCACAATCGAGGATA
CTCCAACCCCATTATTTTCGACGGGATACTCCAACCCCGATTTTATTTCCACAATCCTGTTAT
Found at i:215376 original size:79 final size:79
Alignment explanation
Indices: 215288--215998 Score: 759
Period size: 79 Copynumber: 9.0 Consensus size: 79
215278 CCACAATCCT
* * * *
215288 GTTATTTTCGAGGGGATGCTTCAACCCCGGTTTCATTTTCAAAACACAAATTTTTCACAATCGAG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAG
215353 GATACTCCAACCCC
66 GATACTCCAACCCC
* * * * * * * * *
215367 ATTATTTTCGACGGGATACTTTAACCCTGATTTTATTTTCAAAACACTGATTTTCCACAATCGGG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAG
215432 GATACTCCAACCCC
66 GATACTCCAACCCC
* * ** * * *
215446 ATTATTTTCGACGGGATAC-TCTAACATCGGTTTTATTTCCAAAACACTAATTTTCCATAAT-TA
1 GTTATTTTCGAGGGGATACTTC-AACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGA
*
215509 GGGGTACTCCAACCCC
65 -GGATACTCCAACCCC
* * * * *
215525 GTTATTTTCGAGGGGATACTTCAACCCCGGTGTTATTTCCAAAACACCAATTTTCCATAATCGGG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAG
215590 GATACTCCAACCCC
66 GATACTCCAACCCC
* * * * * * * * * *
215604 GTTATTTTCGAAGGGATGCTCCAACCCCGATTTTATTTCCAAACCATTGATTTTCCATAATCGGG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAG
*
215669 GATACTCCAACCCT
66 GATACTCCAACCCC
* * * * * *
215683 GTTATTTTTGTGGGGATACTCCAACCCCGGTTCTATTTTCAAAACACCAATTTTTCACAATCGAG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAG
* *
215748 GATATTCTAACCCC
66 GATACTCCAACCCC
* * *
215762 GTTATTTTTGAGGAGATACTCCAACCCCGGTTTTATTTTCAAAACA-TCAATTTTTCATAATCGA
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACT-AATTTTTCATAATCGA
*
215826 GGATACTCTAACCCC
65 GGATACTCCAACCCC
* * * * ** *
215841 ATTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTACCAAAACA-TCAATTTTTCATAATCGG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACT-AATTTTTCATAATCGA
215905 GGATACTCCAACCCC
65 GGATACTCCAACCCC
* * ** * * *
215920 GTTGTTTTCCAGGGGATAC-TCTAACCCTAGTTTTATTTTCAAAATACTGATTTTTCACAATC-A
1 GTTATTTTCGAGGGGATACTTC-AACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGA
215983 GGGATACTCCAACCCC
65 -GGATACTCCAACCCC
215999 AATTTTATCT
Statistics
Matches: 538, Mismatches: 86, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
78 2 0.00
79 533 0.99
80 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAG
GATACTCCAACCCC
Found at i:215453 original size:206 final size:205
Alignment explanation
Indices: 215092--215486 Score: 494
Period size: 206 Copynumber: 1.9 Consensus size: 205
215082 TTTTACTTCT
* ** *
215092 GAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCGATGTTCCACAATCAGGGATACTCTA
1 GAGGGGATACTCCAACCCCAGTTTCATTTCCAAAACACAAATGTTCCACAATCAGGGATACTCCA
* *
215157 ACCCATTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTAGAAACATCTATTTTCTACAAT
66 ACCCATTATTTCTGACGGGATACTCCAACCCCGATTTTATTTTAGAAACATCTATTTTCCACAAT
* ** *
215222 TGAGGATACTCCAACCCTGTTATTTTCGA-GGAGATACTCCAACCCCGATTTTATTTCCACAATC
131 CGAGGATACTCCAACCCCATTATTTTCGACGG-GATACTCCAACACCGATTTTATTTCCACAATC
215286 CTGTTATTTTC
195 CTGTTATTTTC
* * * * * *
215297 GAGGGGATGCTTCAACCCCGGTTTCATTTTCAAAACACAAATTTTTCACAATC-GAGGATACTCC
1 GAGGGGATACTCCAACCCCAGTTTCATTTCCAAAACACAAATGTTCCACAATCAG-GGATACTCC
** *
215361 AACCCCATTATTT-TCGACGGGATACTTTAACCCTGATTTTATTTTCA-AAACA-CTGATTTTCC
65 AA-CCCATTATTTCT-GACGGGATACTCCAACCCCGATTTTATTTT-AGAAACATCT-ATTTTCC
* * * *
215423 ACAATCGGGGATACTCCAACCCCATTATTTTCGACGGGATACTCTAACATCGGTTTTATTTCCA
126 ACAATCGAGGATACTCCAACCCCATTATTTTCGACGGGATACTCCAACACCGATTTTATTTCCA
215487 AAACACTAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
204 1 0.01
205 57 0.35
206 100 0.62
207 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (205 bp):
GAGGGGATACTCCAACCCCAGTTTCATTTCCAAAACACAAATGTTCCACAATCAGGGATACTCCA
ACCCATTATTTCTGACGGGATACTCCAACCCCGATTTTATTTTAGAAACATCTATTTTCCACAAT
CGAGGATACTCCAACCCCATTATTTTCGACGGGATACTCCAACACCGATTTTATTTCCACAATCC
TGTTATTTTC
Found at i:215703 original size:237 final size:235
Alignment explanation
Indices: 215288--215998 Score: 895
Period size: 237 Copynumber: 3.0 Consensus size: 235
215278 CCACAATCCT
* * *
215288 GTTATTTTCGAGGGGATGCTTCAACCCCGGTTTCATTTTCAAAACACAAATTTTTCACAATCGAG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGTTT-ATTTTCAAAACACCAATTTTTCATAATCGAG
* ** * * *
215353 GATACTCCAACCCCATTATTTTCGACGGGATACTTTAACCCTGATTTTATTTTCAAAACACTGAT
65 GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATTGAT
* * * *
215418 TTTCCACAATCGGGGATACTCCAACCCCATTATTTTCGACGGGATACTCTAACATCGGTTTTATT
130 TTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAAC-CCGGTTTTATT
* * * *
215483 TCCAAAACACTAATTTTCCATAATTAGGGGTACTCCAACCCC
194 TTCAAAACACTAATTTTTCACAATTAGGGATACTCCAACCCC
* * *
215525 GTTATTTTCGAGGGGATACTTCAACCCCGGTGTTATTTCCAAAACACCAATTTTCCATAATCGGG
1 GTTATTTTCGAGGGGATACTTCAACCCCGGT-TTATTTTCAAAACACCAATTTTTCATAATCGAG
* * *
215590 GATACTCCAACCCCGTTATTTTCGAAGGGATGCTCCAACCCCGATTTTATTTCCAAACCATTGAT
65 GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATTGAT
* * * * *
215655 TTTCCATAATCGGGGATACTCCAACCCTGTTATTTTTGTGGGGATACTCCAACCCCGGTTCTATT
130 TTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAA-CCCGGTTTTATT
* * * *
215720 TTCAAAACACCAATTTTTCACAA-TCGAGGATATTCTAACCCC
194 TTCAAAACACTAATTTTTCACAATTAG-GGATACTCCAACCCC
* * * *
215762 GTTATTTTTGAGGAGATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGAG
1 GTTATTTTCGAGGGGATACTTCAACCCCGG-TTTATTTTCAAAACACCAATTTTTCATAATCGAG
* * * * **
215827 GATACTCTAACCCCATTA-TTTCCAAGGGGATACTCCAACCCCGGTTTTATTACCAAAACATCAA
65 GATACTCCAACCCCATTATTTTCGAA-GGGATACTCCAACCCCGATTTTATTTCCAAAACATTGA
* * * *
215891 TTTTTCATAATCGGGGATACTCCAACCCCGTTGTTTTCCAGGGGATACTCTAACCCTAGTTTTAT
129 TTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCC-GGTTTTAT
* * *
215956 TTTCAAAATACTGATTTTTCACAATCAGGGATACTCCAACCCC
193 TTTCAAAACACTAATTTTTCACAATTAGGGATACTCCAACCCC
215999 AATTTTATCT
Statistics
Matches: 403, Mismatches: 64, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
236 11 0.03
237 387 0.96
238 5 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (235 bp):
GTTATTTTCGAGGGGATACTTCAACCCCGGTTTATTTTCAAAACACCAATTTTTCATAATCGAGG
ATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATTGATT
TTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCGGTTTTATTTT
CAAAACACTAATTTTTCACAATTAGGGATACTCCAACCCC
Found at i:218291 original size:8 final size:7
Alignment explanation
Indices: 218277--218326 Score: 57
Period size: 7 Copynumber: 6.7 Consensus size: 7
218267 AAAACCACCA
218277 AAAAAAC
1 AAAAAAC
218284 AAACAAAC
1 AAA-AAAC
218292 ATAAAAAAAC
1 --A-AAAAAC
218302 AAAAAA-
1 AAAAAAC
218308 AAAAAAC
1 AAAAAAC
218315 AAAAAAC
1 AAAAAAC
218322 AAAAA
1 AAAAA
218327 GCAACAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 6 0.16
7 20 0.53
8 5 0.13
10 5 0.13
11 2 0.05
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:218298 original size:30 final size:26
Alignment explanation
Indices: 218255--218338 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 26
218245 GTAAAAAGTC
* *
218255 AAAAGCAAAAAAAAAACCACCAAAAAA
1 AAAAACAAAAAAAAAAACA-CAAAAAA
*
218282 ACAAACAAACATAAAAAAACA-AAAAAA
1 AAAAACAAA-A-AAAAAAACACAAAAAA
218309 AAAAACAAAAAACAAAAAGCAACAAAAAA
1 AAAAACAAAAAA-AAAAA-C-ACAAAAAA
218338 A
1 A
218339 TGCAAAGGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 22 0.47
28 2 0.04
29 15 0.32
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.01
Consensus pattern (26 bp):
AAAAACAAAAAAAAAAACACAAAAAA
Found at i:218325 original size:18 final size:18
Alignment explanation
Indices: 218276--218338 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
218266 AAAAACCACC
218276 AAAAAAACAAACAAACATAA
1 AAAAAAACAAA-AAACA-AA
218296 AAAAACAA-AAAAAA-AAA
1 AAAAA-AACAAAAAACAAA
*
218313 ACAAAAAACAAAAAGCAACA
1 A-AAAAAACAAAAAACAA-A
218333 AAAAAA
1 AAAAAA
218339 TGCAAAGGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 5 0.14
18 10 0.27
19 10 0.27
20 10 0.27
21 2 0.05
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAAACAAAAAACAAA
Found at i:219620 original size:33 final size:33
Alignment explanation
Indices: 219583--219808 Score: 301
Period size: 33 Copynumber: 6.8 Consensus size: 33
219573 TTCCAAAAGA
* * * *
219583 TCCATGACTCAGTGGCGTTCTTTTTTTTTCAAG
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAG
* * *
219616 TCCATGACT-TGTGGCATCTTTTTTCTTCAAAG
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAG
*
219648 TCCATGACTCAATGGCATCCTTTTTCTTCCAAG
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAG
** *
219681 TCCACAACTCAGTGGCATCTTTTTTCTTCCAAG
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAG
*
219714 TCCACTGACTCAGTGGCATCCCTTTTCTTCCAAG
1 TCCA-TGACTCAGTGGCATCCTTTTTCTTCCAAG
*
219748 TCCACGACTCAGTGGCATCCTTTTTCTTCCAAG
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAG
* *
219781 TCCACGACTCAGTGGCAACCTTTTTCTT
1 TCCATGACTCAGTGGCATCCTTTTTCTT
219809 TTCAAAGCCA
Statistics
Matches: 169, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
32 25 0.15
33 115 0.68
34 29 0.17
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.38
Consensus pattern (33 bp):
TCCATGACTCAGTGGCATCCTTTTTCTTCCAAG
Found at i:219740 original size:67 final size:66
Alignment explanation
Indices: 219583--219808 Score: 319
Period size: 67 Copynumber: 3.4 Consensus size: 66
219573 TTCCAAAAGA
* * * * * * *
219583 TCCATGACTCAGTGGCGTTCTTTTTTTTTCAAGTCCATGACT-TGTGGCATCTTTTTTCTTCAAA
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCCAA
219647 G
66 G
* *
219648 TCCATGACTCAATGGCATCCTTTTTCTTCCAAGTCCACAACTCAGTGGCATCTTTTTTCTTCCAA
1 TCCATGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCCAA
219713 G
66 G
* *
219714 TCCACTGACTCAGTGGCATCCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCA
1 TCCA-TGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCCA
219779 AG
65 AG
* *
219781 TCCACGACTCAGTGGCAACCTTTTTCTT
1 TCCATGACTCAGTGGCATCCTTTTTCTT
219809 TTCAAAGCCA
Statistics
Matches: 143, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
65 35 0.24
66 46 0.32
67 62 0.43
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.38
Consensus pattern (66 bp):
TCCATGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCCAA
G
Found at i:219751 original size:100 final size:98
Alignment explanation
Indices: 219589--219808 Score: 307
Period size: 100 Copynumber: 2.2 Consensus size: 98
219579 AAGATCCATG
* * * ** *
219589 ACTCAGTGGCGTTCTTTTTT-TTTCAAGTCCATGACTTGTGGCATCTTTTTTCTTCAAAGTCCAT
1 ACTCAGTGGC-ATCTTTTTTCTTCCAAGTCCATGACTAGTGGCATCCCTTTTCTTCAAAGTCCAC
219653 GACTCAATGGCATCCTTTTTCTTCCAAGTCCACA
65 GACTCAATGGCATCCTTTTTCTTCCAAGTCCACA
*
219687 ACTCAGTGGCATCTTTTTTCTTCCAAGTCCACTGACTCAGTGGCATCCCTTTTCTTCCAAGTCCA
1 ACTCAGTGGCATCTTTTTTCTTCCAAGTCCA-TGACT-AGTGGCATCCCTTTTCTTCAAAGTCCA
* *
219752 CGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACG
64 CGACTCAATGGCATCCTTTTTCTTCCAAGTCCACA
* *
219787 ACTCAGTGGCAACCTTTTTCTT
1 ACTCAGTGGCATCTTTTTTCTT
219809 TTCAAAGCCA
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
97 8 0.07
98 20 0.19
99 5 0.05
100 75 0.69
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.38
Consensus pattern (98 bp):
ACTCAGTGGCATCTTTTTTCTTCCAAGTCCATGACTAGTGGCATCCCTTTTCTTCAAAGTCCACG
ACTCAATGGCATCCTTTTTCTTCCAAGTCCACA
Found at i:219837 original size:100 final size:100
Alignment explanation
Indices: 219602--219898 Score: 292
Period size: 100 Copynumber: 3.0 Consensus size: 100
219592 CAGTGGCGTT
* * * ** *
219602 CTTTTTTTTTC-AAGTCC-ATGACT-TGTGGCATCTTTTTTCTTCAAAGTCCATGACTCAATGGC
1 CTTTTTTCTTCAAAGTCCAATAACTCAGTGGCATCCCTTTTCTTCAAAGTCCACGACTCAATGGC
*
219664 ATCCTTTTTCTTCCAAGTCCACAACTCAGTGGCAT
66 ATCCTTTTTCTTCCAAGTCCACAACTCAGTGGCAC
* * * * *
219699 CTTTTTTCTTCCAAGTCCACTGACTCAGTGGCATCCCTTTTCTTCCAAGTCCACGACTCAGTGGC
1 CTTTTTTCTTCAAAGTCCAATAACTCAGTGGCATCCCTTTTCTTCAAAGTCCACGACTCAATGGC
*
219764 ATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCAAC
66 ATCCTTTTTCTTCCAAGTCCACAACTCAGTGGC-AC
* * * *
219800 CTTTTTCTTTTCAAAG-CCAATAACTCCGTGGCA-CCC--TT-TT--AAGTCCACAACTCCATGG
1 CTTTTT-TCTTCAAAGTCCAATAACTCAGTGGCATCCCTTTTCTTCAAAGTCCACGACTCAATGG
** * *
219858 CA-CCTTTTTGCTTTTAAGTTCACAACTCTGTGGCAC
65 CATCCTTTTT-CTTCCAAGTCCACAACTCAGTGGCAC
*
219894 ATTTT
1 CTTTT
219899 CCTTTTAAAG
Statistics
Matches: 170, Mismatches: 24, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
94 13 0.08
95 36 0.21
97 12 0.07
98 8 0.05
99 5 0.03
100 68 0.40
101 21 0.12
102 7 0.04
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (100 bp):
CTTTTTTCTTCAAAGTCCAATAACTCAGTGGCATCCCTTTTCTTCAAAGTCCACGACTCAATGGC
ATCCTTTTTCTTCCAAGTCCACAACTCAGTGGCAC
Found at i:219873 original size:33 final size:33
Alignment explanation
Indices: 219660--220739 Score: 469
Period size: 33 Copynumber: 34.4 Consensus size: 33
219650 CATGACTCAA
** *
219660 TGGCATCCTTTTT-CTTCCAAGTCCACAACTCAG
1 TGGCA-CCTTTTTCCTTTTAAGTCCACAACTCCG
* * ** * *
219693 TGGCATCTTTTTTCTTCCAAGTCCACTGACTCAG
1 TGGCACCTTTTTCCTTTTAAGTCCAC-AACTCCG
* ** * *
219727 TGGCATCCCTTTT-CTTCCAAGTCCACGACTCAG
1 TGGCA-CCTTTTTCCTTTTAAGTCCACAACTCCG
** * *
219760 TGGCATCCTTTTT-CTTCCAAGTCCACGACTCAG
1 TGGCA-CCTTTTTCCTTTTAAGTCCACAACTCCG
*
219793 TGGCAACCTTTTT-CTTTTCAAAG-CCAATAACTCCG
1 TGGC-ACCTTTTTCCTTTT--AAGTCC-ACAACTCCG
*
219828 TGGCA-C-----CCTTTTAAGTCCACAACTCCA
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
219855 TGGCACCTTTTTGCTTTTAAGTTCACAACTCTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
219888 TGGCA-CATTTTCCTTTTAAAGCCCACAACTCTG
1 TGGCACCTTTTTCCTTTT-AAGTCCACAACTCCG
* * *
219921 TGGCA-C-----CATTTTAAATCCACAACTTCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * * *
219948 TGGCACATTTTTCCTTTTATGTCCATAACTCCA
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
219981 TGACACCTTTTTCTTTTTAAATCCACAACTCCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
*** * *
220014 TGGCACCCTTTTTCCTCCAAAAATTCACAACTCCG
1 TGGCA-CCTTTTTCCT-TTTAAGTCCACAACTCCG
* *** *
220049 TGGCACCCTCTTTCCTCCAAAAATCCACAACTCCG
1 TGGCA-CCTTTTTCCT-TTTAAGTCCACAACTCCG
* *
220084 TGGCA-C-----CCTTTTAAGTCCATAACTCTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* **
220111 TGGCACCTTTTCCCTTTTAAAACCCACAACTCCG
1 TGGCACCTTTTTCCTTTT-AAGTCCACAACTCCG
*
220145 TGGCA-C-----CCTTTTAAGTCCACAACTTCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
220172 TGGCACCTTTTTCCCTTTAAGTTCACAACTTCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
*** * * **
220205 TGGCACCCTTTTTCCTCCAAAAGCCCATAACTCTA
1 TGGCA-CCTTTTTCCT-TTTAAGTCCACAACTCCG
220240 TGGCA-C-----CCTTTTAAGTCCACAACTCCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
*
220267 TGGCACCTTTTTCCTTTTAAGTCCATAACTCCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
*
220300 TGGCACCTTTTTCCTTTTAAGTCCACAACTCTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* *
220333 TGGCA-C-----CCTTTTAAGTTCACAACTCTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
220360 TGCCACC-TTTTCCTTTTTAAAGCCCATAACTCCG
1 TGGCACCTTTTTCC-TTTT-AAGTCCACAACTCCG
* * * *
220394 TAGCA-C-----CCTTTTACGTCCACAACTGCA
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * **
220421 TGGCA-ATTTTTCCTTTTAAGTCCATAACTTTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * * **
220453 TAGCACATTTTTCCTTTTAAGTCCACAGCTTTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
*** *
220486 TGGCATCCTTTTTCCTCCGAAAGTCCACAACTCTG
1 TGGCA-CCTTTTTCCT-TTTAAGTCCACAACTCCG
***
220521 TGGCA-C-----CCTTTTAAGTCCACAACTTTA
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * *
220548 TGGCACC-TTTTCCTTTTAAGCCCATAACTCTG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
*
220580 TGGCA-C-----CCTTTGAAGTCCACAACTCCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* *
220607 TGGCA-C-----CCTTTTAAGTCCACAACTTCA
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * * **
220634 TGGCACATTTTT-CTTTCCAAAGCCCACAACTTTG
1 TGGCACCTTTTTCCTTT--TAAGTCCACAACTCCG
*
220668 TGGCA-C-----CCTTTTAAGTCCCCAACTCCG
1 TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
* * **
220695 TGG-AACTTTTTCCCTTTTAAGCCCACAACTTTG
1 TGGCACCTTTTT-CCTTTTAAGTCCACAACTCCG
220728 TGGCACCTTTTT
1 TGGCACCTTTTT
220740 AAGTCCACAA
Statistics
Matches: 821, Mismatches: 144, Indels: 163
0.73 0.13 0.14
Matches are distributed among these distances:
26 1 0.00
27 198 0.24
28 32 0.04
29 11 0.01
31 1 0.00
32 65 0.08
33 302 0.37
34 109 0.13
35 102 0.12
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (33 bp):
TGGCACCTTTTTCCTTTTAAGTCCACAACTCCG
Found at i:219959 original size:27 final size:28
Alignment explanation
Indices: 219901--219958 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
219891 CACATTTTCC
219901 TTTTAAAGCCCACAACTCTGTGGCACCA
1 TTTTAAAGCCCACAACTCTGTGGCACCA
*
219929 TTTTAAA-TCCACAACT-TCGTGGCA-CA
1 TTTTAAAGCCCACAACTCT-GTGGCACCA
219955 TTTT
1 TTTT
219959 TCCTTTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.25
27 14 0.50
28 7 0.25
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (28 bp):
TTTTAAAGCCCACAACTCTGTGGCACCA
Found at i:220025 original size:27 final size:28
Alignment explanation
Indices: 219993--220183 Score: 107
Period size: 35 Copynumber: 6.2 Consensus size: 28
219983 ACACCTTTTT
*
219993 CTTTTTAAATCCACAACTCCGTGGCACC
1 CTTTTAAAATCCACAACTCCGTGGCACC
*
220021 CTTTTTCCTCCAAAAATTCACAACTCCGTGGCACCC
1 C--TTT--T---AAAATCCACAACTCCGTGGCA-CC
220057 TCTTTCCTCCAAAAATCCACAACTCCGTGGCACC
1 -CTTT--T---AAAATCCACAACTCCGTGGCACC
* * *
220091 CTTTT-AAGTCCATAACTCTGTGGCACCTTTTCC
1 CTTTTAAAATCCACAACTCCGTGGCA------CC
*
220124 CTTTTAAAACCCACAACTCCGTGGCACC
1 CTTTTAAAATCCACAACTCCGTGGCACC
* *
220152 CTTTT-AAGTCCACAACTTCGTGGCACC
1 CTTTTAAAATCCACAACTCCGTGGCACC
*
220179 TTTTT
1 CTTTT
220184 CCCTTTAAGT
Statistics
Matches: 133, Mismatches: 14, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
27 40 0.30
28 8 0.06
30 3 0.02
31 1 0.01
32 1 0.01
33 11 0.08
34 18 0.14
35 48 0.36
36 2 0.02
37 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.10, T:0.30
Consensus pattern (28 bp):
CTTTTAAAATCCACAACTCCGTGGCACC
Found at i:220046 original size:35 final size:35
Alignment explanation
Indices: 219999--220095 Score: 176
Period size: 35 Copynumber: 2.8 Consensus size: 35
219989 TTTTCTTTTT
219999 AAATCCACAACTCCGTGGCACCCTTTTTCCTCCAA
1 AAATCCACAACTCCGTGGCACCCTTTTTCCTCCAA
* *
220034 AAATTCACAACTCCGTGGCACCCTCTTTCCTCCAA
1 AAATCCACAACTCCGTGGCACCCTTTTTCCTCCAA
220069 AAATCCACAACTCCGTGGCACCCTTTT
1 AAATCCACAACTCCGTGGCACCCTTTT
220096 AAGTCCATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.26, C:0.39, G:0.09, T:0.26
Consensus pattern (35 bp):
AAATCCACAACTCCGTGGCACCCTTTTTCCTCCAA
Found at i:220175 original size:61 final size:60
Alignment explanation
Indices: 220072--220618 Score: 390
Period size: 61 Copynumber: 8.8 Consensus size: 60
220062 CCTCCAAAAA
* *
220072 TCCACAACTCCGTGGCACCCTTTTAAGTCCATAAC-TCTGTGGCACCTTTTCCCTTTTAAAA
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTC-GTGGCACCTTTTCCCTTTT-AAG
*
220133 CCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCC-TTTAAG
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACC-TTTTCCCTTTTAAG
* * *** * * * * **
220193 TTCACAACTTCGTGGCACCCTTTTTCCTCCAAAAGC-CCAT--AACTCTATGGCACCCTTTTAAG
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAA-CTTCGTGGCAC-CT-T--TTCCCTTTTAAG
* * *
220255 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAA
1 TCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTTCGTGGCACCTTTTCCCTTTTAA
220320 G
60 G
* * * *
220321 TCCACAACTCTGTGGCACCCTTTTAAGTTCACAAC-TCTGTGCCACCTTTTCCTTTTTAAAG
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTC-GTGGCACCTTTTCCCTTTT-AAG
* * * * * * * *
220382 CCCATAACTCCGTAGCACCCTTTTACGTCCACAACTGCATGGCA-ATTTTTCCTTTTAAG
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTCCCTTTTAAG
* ** * * * * ***
220441 TCCATAACTTTGTAGCACATTTTTCCTTTTAAGTCCACAGCTTTGTGGCATCCTTTTTCCTCCGA
1 TCCACAACTCCGTGGCAC------CCTTTTAAGTCCACAACTTCGTGGCA-CCTTTTCCCT-TTT
220506 AAG
58 AAG
* **
220509 TCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTTTATGGCACCTTTT-CCTTTTAAG
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTCCCTTTTAAG
* * * * *
220568 CCCATAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCACCCTTTT
1 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCA-CCTTTT
220619 AAGTCCACAA
Statistics
Matches: 385, Mismatches: 71, Indels: 61
0.74 0.14 0.12
Matches are distributed among these distances:
58 3 0.01
59 62 0.16
60 80 0.21
61 90 0.23
62 55 0.14
63 1 0.00
65 22 0.06
66 25 0.06
67 9 0.02
68 34 0.09
69 2 0.01
70 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (60 bp):
TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTCCCTTTTAAG
Found at i:220271 original size:27 final size:27
Alignment explanation
Indices: 220233--220760 Score: 196
Period size: 27 Copynumber: 17.5 Consensus size: 27
220223 AAAAGCCCAT
*
220233 AACTCTATGGCACCCTTTTAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
* *
220260 AACTCCGTGGCACCTTTTTCCTTTTAAGTCCAT
1 AACTCTGTGGCA-C-----CCTTTTAAGTCCAC
*
220293 AACTCCGTGGCACCTTTTTCCTTTTAAGTCCAC
1 AACTCTGTGGCA-C-----CCTTTTAAGTCCAC
*
220326 AACTCTGTGGCACCCTTTTAAGTTCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
* * *
220353 AACTCTGTGCCACCTTTTCCTTTTTAAAGCCCAT
1 AACTCTGTGGCA-C----CC-TTTT-AAGTCCAC
* * *
220387 AACTCCGTAGCACCCTTTTACGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
* * *
220414 AACTGC-ATGGCAATTTTTCCTTTTAAGTCCAT
1 AACT-CTGTGGC-A----CCCTTTTAAGTCCAC
* *
220446 AACTTTGTAGCACATTTTTCCTTTTAAGTCCAC
1 AACTCTGTGGCAC------CCTTTTAAGTCCAC
* * *
220479 AGCTTTGTGGCATCCTTTTTCCTCCGAAAGTCCAC
1 AACTCTGTGGCA-CC-CTTT--T----AAGTCCAC
220514 AACTCTGTGGCACCCTTTTAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
* * * *
220541 AACTTTATGGCACCTTTTCCTTTTAAGCCCAT
1 AACTCTGTGGCA-C----CCTTTTAAGTCCAC
*
220573 AACTCTGTGGCACCCTTTGAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
*
220600 AACTCCGTGGCACCCTTTTAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
* * * *
220627 AACT-TCATGGCACATTTTTCTTTCCAAAGCCCAC
1 AACTCT-GTGGCAC-----CCTTT--TAAGTCCAC
* *
220661 AACTTTGTGGCACCCTTTTAAGTCCCC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
* * *
220688 AACTCCGTGGAACTTTTTCCCTTTTAAGCCCAC
1 AACTCTGTGG--C----ACCCTTTTAAGTCCAC
* *
220721 AACTTTGTGGCACCTTTTTAAGTCCAC
1 AACTCTGTGGCACCCTTTTAAGTCCAC
220748 AACTCTGTGGCAC
1 AACTCTGTGGCAC
220761 TCCCTTCTAA
Statistics
Matches: 383, Mismatches: 64, Indels: 108
0.69 0.12 0.19
Matches are distributed among these distances:
27 149 0.39
28 10 0.03
29 10 0.03
31 5 0.01
32 48 0.13
33 108 0.28
34 34 0.09
35 19 0.05
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (27 bp):
AACTCTGTGGCACCCTTTTAAGTCCAC
Found at i:220387 original size:94 final size:92
Alignment explanation
Indices: 220090--220630 Score: 471
Period size: 95 Copynumber: 5.8 Consensus size: 92
220080 TCCGTGGCAC
* * ** *
220090 CCTTTTAAGTCCATAACTCTGTGGCACCTTTTCCCTTTTAAAACCCACAACTCCGTGGCACCCTT
1 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTT-AAGTCCACAACTCTGTGGCACCCTT
220155 TTAAGTCCACAACT-TCGTGGCACCTTTTT
65 TTAAGTCCACAACTCT-GTGGCACC-TTTT
* * * * *** * * *
220184 CCCTTTAAGTTCACAACTTCGTGGCACCCTTTTTCCTCCAAAAGCCCATAACTCTATGGCACCCT
1 CCTTTTAAGTCCATAACTCCGTGGCA-CCTTTTTCCT-TTTAAGTCCACAACTCTGTGGCACCCT
*
220249 TTTAAGTCCACAACTCCGTGGCACCTTTTT
64 TTTAAGTCCACAACTCTGTGGCACC-TTTT
220279 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
1 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
* *
220344 TAAGTTCACAACTCTGTGCCACCTTTT
66 TAAGTCCACAACTCTGTGGCACCTTTT
* * * *
220371 CCTTTTTAAAGCCCATAACTCCGTAGCA-C-----CCTTTTACGTCCACAACTGC-ATGGCAATT
1 CC-TTTT-AAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACT-CTGTGGC-A--
* * * * *
220429 TTTCCTTTTAAGTCCATAACTTTGTAGCACATTTTT
60 --CCCTTTTAAGTCCACAACTCTGTGGCAC-CTTTT
* * ** ***
220465 CCTTTTAAGTCCACAGCTTTGTGGCATCCTTTTTCCTCCGAAAGTCCACAACTCTGTGGCACCCT
1 CCTTTTAAGTCCATAACTCCGTGGCA-CCTTTTTCCT-TTTAAGTCCACAACTCTGTGGCACCCT
* *
220530 TTTAAGTCCACAACTTTATGGCACCTTTT
64 TTTAAGTCCACAACTCTGTGGCACCTTTT
* * * *
220559 CCTTTTAAGCCCATAACTCTGTGGCA-C-----CCTTTGAAGTCCACAACTCCGTGGCACCCTTT
1 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
220618 TAAGTCCACAACT
66 TAAGTCCACAACT
220631 TCATGGCACA
Statistics
Matches: 364, Mismatches: 62, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
86 38 0.10
87 3 0.01
88 21 0.06
89 2 0.01
92 21 0.06
93 74 0.20
94 82 0.23
95 103 0.28
99 5 0.01
100 15 0.04
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (92 bp):
CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
TAAGTCCACAACTCTGTGGCACCTTTT
Found at i:220437 original size:32 final size:33
Alignment explanation
Indices: 220400--220479 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 33
220390 TCCGTAGCAC
* *
220400 CCTTTTACGTCCACAACTGCATGGCA-ATTTTT
1 CCTTTTAAGTCCACAACTGCATAGCACATTTTT
* ***
220432 CCTTTTAAGTCCATAACTTTGTAGCACATTTTT
1 CCTTTTAAGTCCACAACTGCATAGCACATTTTT
220465 CCTTTTAAGTCCACA
1 CCTTTTAAGTCCACA
220480 GCTTTGTGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 20 0.50
33 20 0.50
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTGCATAGCACATTTTT
Found at i:220496 original size:127 final size:126
Alignment explanation
Indices: 220279--220585 Score: 304
Period size: 127 Copynumber: 2.5 Consensus size: 126
220269 GCACCTTTTT
* * * * * * *
220279 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC-----
1 CCTTTTAAGTCCACAACTGCATGGCAAC-TTTTCCTTTTAAGCCCATAACTCTGTAGCACATTTT
* *** *
220339 -CCTTTTAAGTTCACAACTCTGTGCCACC-TTTTCCTTTTTAAAGCCCATAACTCCGTAGCAC
65 TCCTTTTAAGTCCACAACTCTGTGCCACCTTTTTCC-TCCGAAAGCCCACAACTCCGTAGCAC
* * * *
220400 CCTTTTACGTCCACAACTGCATGGCAATTTTTCCTTTTAAGTCCATAACTTTGTAGCACATTTTT
1 CCTTTTAAGTCCACAACTGCATGGCAACTTTTCCTTTTAAGCCCATAACTCTGTAGCACATTTTT
* * * * * *
220465 CCTTTTAAGTCCACAGCTTTGTGGCATCCTTTTTCCTCCGAAAGTCCACAACTCTGTGGCAC
66 CCTTTTAAGTCCACAACTCTGTGCCA-CCTTTTTCCTCCGAAAGCCCACAACTCCGTAGCAC
** * *
220527 CCTTTTAAGTCCACAACTTTATGGCACCTTTTCCTTTTAAGCCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTGCATGGCAACTTTTCCTTTTAAGCCCATAACTCTGTAGCAC
220586 CCTTTGAAGT
Statistics
Matches: 150, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
120 28 0.19
121 22 0.15
126 22 0.15
127 72 0.48
128 6 0.04
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.36
Consensus pattern (126 bp):
CCTTTTAAGTCCACAACTGCATGGCAACTTTTCCTTTTAAGCCCATAACTCTGTAGCACATTTTT
CCTTTTAAGTCCACAACTCTGTGCCACCTTTTTCCTCCGAAAGCCCACAACTCCGTAGCAC
Found at i:220586 original size:59 final size:59
Alignment explanation
Indices: 220279--220618 Score: 322
Period size: 59 Copynumber: 5.5 Consensus size: 59
220269 GCACCTTTTT
* * *
220279 CCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCACC-TTTTCCTTTTAAGTCCATAACTCTGTGGCAC
* * * * *
220339 CCTTTTAAGTTCACAACTCTGTGCCACCTTTTCCTTTTTAAAGCCCATAACTCCGTAGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTCC-TTTT-AAGTCCATAACTCTGTGGCAC
* * ** * *
220400 CCTTTTACGTCCACAACTGC-ATGGCAATTTTTCCTTTTAAGTCCATAACTTTGTAGCAC
1 CCTTTTAAGTCCACAACT-CTGTGGCACCTTTTCCTTTTAAGTCCATAACTCTGTGGCAC
* * *** *
220459 ATTTTTCCTTTTAAGTCCACAGCTTTGTGGCATCCTTTTTCCTCCGAAAGTCCACAACTCTGTGG
1 ------CCTTTTAAGTCCACAACTCTGTGGCA-CC-TTTTCCT-TTTAAGTCCATAACTCTGTGG
220524 CAC
57 CAC
* * *
220527 CCTTTTAAGTCCACAACTTTATGGCACCTTTTCCTTTTAAGCCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCATAACTCTGTGGCAC
* *
220586 CCTTTGAAGTCCACAACTCCGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCA-CCTTTT
220619 AAGTCCACAA
Statistics
Matches: 226, Mismatches: 40, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
59 65 0.29
60 45 0.20
61 45 0.20
62 25 0.11
65 21 0.09
67 7 0.03
68 18 0.08
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (59 bp):
CCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCATAACTCTGTGGCAC
Found at i:220589 original size:186 final size:186
Alignment explanation
Indices: 220246--220603 Score: 504
Period size: 186 Copynumber: 1.9 Consensus size: 186
220236 TCTATGGCAC
* * *
220246 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTAGCACATTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*** * *
220311 TCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTTCACAACTCTGTGCCACCTTTTCCTTT
66 TCCTCGAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGCCACCTTTTCCTTT
* *
220376 TTAAAGCCCATAACTCCGTAGCACCCTTTTACGTCCACAACTGCATGGCAATTTTT
131 TTAAAGCCCATAACTCCGTAGCACCCTTTGAAGTCCACAACTGCATGGCAATTTTT
* ** * **
220432 CCTTTTAAGTCCATAACTTTGTAGCACATTTTTCCTTTTAAGTCCACAGCTTTGTGGCATCCTTT
1 CCTTTTAAGTCCACAACTCCGTAGCACATTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTT
* *
220497 TTCCTCCGAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTTTATGGCACCTTTTCC-
65 TTCCT-CGAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGCCACCTTTTCCT
* *
220561 TTTT-AAGCCCATAACTCTGTGGCACCCTTTGAAGTCCACAACT
129 TTTTAAAGCCCATAACTCCGTAGCACCCTTTGAAGTCCACAACT
220604 CCGTGGCACC
Statistics
Matches: 150, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
186 85 0.57
187 14 0.09
188 51 0.34
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (186 bp):
CCTTTTAAGTCCACAACTCCGTAGCACATTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
TCCTCGAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGCCACCTTTTCCTTT
TTAAAGCCCATAACTCCGTAGCACCCTTTGAAGTCCACAACTGCATGGCAATTTTT
Found at i:220638 original size:148 final size:148
Alignment explanation
Indices: 220465--220760 Score: 398
Period size: 148 Copynumber: 2.0 Consensus size: 148
220455 GCACATTTTT
* ** * *
220465 CCTTTTAAGTCCACAGCTTTGTGGCATCCTTTTTC-CTCCGAAAGTCCACAACTCTGTGGCACCC
1 CCTTTTAAGTCCACAACTTCATGGCA-CATTTTTCTCTCC-AAAGCCCACAACTCTGTGGCACCC
** * *
220529 TTTTAAGTCCACAACTTTATGGCACCTTTT-CCTTTTAAGCCCATAACTCTGTGGCACCCTTTGA
64 TTTTAAGTCCACAACTCCATGGAACCTTTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTTTGA
220593 AGTCCACAACTCCGTGGCAC
129 AGTCCACAACTCCGTGGCAC
* *
220613 CCTTTTAAGTCCACAACTTCATGGCACATTTTTCTTTCCAAAGCCCACAACTTTGTGGCACCCTT
1 CCTTTTAAGTCCACAACTTCATGGCACATTTTTCTCTCCAAAGCCCACAACTCTGTGGCACCCTT
* * * * * *
220678 TTAAGTCCCCAACTCCGTGGAACTTTTTCCCTTTTAAGCCCACAACTTTGTGGCACCTTTTTAAG
66 TTAAGTCCACAACTCCATGGAACCTTTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTTTGAAG
*
220743 TCCACAACTCTGTGGCAC
131 TCCACAACTCCGTGGCAC
220761 TCCCTTCTAA
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
147 53 0.41
148 75 0.59
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (148 bp):
CCTTTTAAGTCCACAACTTCATGGCACATTTTTCTCTCCAAAGCCCACAACTCTGTGGCACCCTT
TTAAGTCCACAACTCCATGGAACCTTTTCCCTTTTAAGCCCACAACTCTGTGGCACCCTTTGAAG
TCCACAACTCCGTGGCAC
Found at i:220730 original size:60 final size:61
Alignment explanation
Indices: 220585--220757 Score: 208
Period size: 60 Copynumber: 2.9 Consensus size: 61
220575 CTCTGTGGCA
* * ** * * *
220585 CCCTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCATGGCACATTTTT
1 CCCTTTAAAGCCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGAACATTTTT
*
220646 --CTTTCCAAAGCCCACAACTTTGTGGCACCCTTTTAAGTCCCCAACTCCGTGGAAC-TTTTT
1 CCCTTT--AAAGCCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGAACATTTTT
* * *
220706 CCCTTTTAAGCCCACAACTTTGTGGCACCTTTTTAAGTCCACAACTCTGTGG
1 CCCTTTAAAGCCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGG
220758 CACTCCCTTC
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
59 4 0.04
60 47 0.49
61 41 0.43
62 4 0.04
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (61 bp):
CCCTTTAAAGCCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGAACATTTTT
Found at i:220805 original size:32 final size:31
Alignment explanation
Indices: 220769--220844 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
220759 ACTCCCTTCT
*
220769 AAAGCCCACACAAGTCGGTGGTAACCCTTTCA
1 AAAG-CCACACAAGTCGGTGGCAACCCTTTCA
220801 AAAGCC-CAC-AGTCGGTGGCAACCCTTTCA
1 AAAGCCACACAAGTCGGTGGCAACCCTTTCA
*
220830 AAAGTCCATACAAGT
1 AAAG-CCACACAAGT
220845 TAGTGGCATC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 23 0.59
30 5 0.13
31 4 0.10
32 7 0.18
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (31 bp):
AAAGCCACACAAGTCGGTGGCAACCCTTTCA
Found at i:220819 original size:148 final size:145
Alignment explanation
Indices: 220505--220827 Score: 319
Period size: 148 Copynumber: 2.2 Consensus size: 145
220495 TTTTCCTCCG
* * ** *
220505 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTTTATGGCACCTTTTCCTTTTAAGCC
1 AAAGCCCACAACTCGGTGGCACCCTTTTAAGTCCACAACTCCATGGAACCTTTTCCTTTTAAGCC
* * * **
220570 CATAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCAT
66 CACAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCACCCTTTAAAGCCCACAAAGTCAT
** *
220635 GGCACATTTTTCTTTCC
131 GGCACA--TCCCTTTCA
** * * *
220652 AAAGCCCACAACTTTGTGGCACCCTTTTAAGTCCCCAACTCCGTGGAACTTTTTCCCTTTTAAGC
1 AAAGCCCACAACTCGGTGGCACCCTTTTAAGTCCACAACTCCATGGAACCTTTT-CCTTTTAAGC
* * * *
220717 CCACAACTTTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACTCCCTTCTAAAGCCCACACAA
65 CCACAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCA--CCCTT-TAAAGCCCACA-AA
* *
220782 GTCGGTGGTA-A-CCCTTTCA
126 GTC-ATGGCACATCCCTTTCA
*
220801 AAAGCCCAC-AGTCGGTGGCAACCCTTT
1 AAAGCCCACAACTCGGTGGC-ACCCTTT
220828 CAAAAGTCCA
Statistics
Matches: 144, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
147 46 0.32
148 55 0.38
149 21 0.15
150 5 0.03
151 9 0.06
152 4 0.03
153 4 0.03
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (145 bp):
AAAGCCCACAACTCGGTGGCACCCTTTTAAGTCCACAACTCCATGGAACCTTTTCCTTTTAAGCC
CACAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCACCCTTTAAAGCCCACAAAGTCAT
GGCACATCCCTTTCA
Done.