Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 29 of 126
Found at i:8978767 original size:30 final size:31
Alignment explanation
Indices: 8978700--8978767 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
8978690 GTAAAAACGT
*
8978700 AATTTTGAGAAGTTTTTGGAGTCAAAATGTA
1 AATTTTGAGAAGTTTTTGGAGTCAAAATATA
*
8978731 AATTTTGAGAAG-TTTT-GAGGTCAAAGTATA
1 AATTTTGAGAAGTTTTTGGA-GTCAAAATATA
*
8978761 ATTTTTG
1 AATTTTG
8978768 GACAATTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 19 0.58
31 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (31 bp):
AATTTTGAGAAGTTTTTGGAGTCAAAATATA
Found at i:8980736 original size:6 final size:6
Alignment explanation
Indices: 8980697--8980774 Score: 58
Period size: 6 Copynumber: 13.8 Consensus size: 6
8980687 TACCTTAATA
* * * *
8980697 TTAAAT TTGAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
8980741 ATAAAT TTAAAT TTAAA- ATAAAT TTGAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
8980775 ATAAATTAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
4 4 0.07
5 13 0.23
6 39 0.70
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:8980747 original size:16 final size:16
Alignment explanation
Indices: 8980709--8980781 Score: 83
Period size: 17 Copynumber: 4.4 Consensus size: 16
8980699 AAATTTGAAT
* *
8980709 TAAATTCAAACTTAAAT
1 TAAATTTAAA-TTAAAA
*
8980726 TAAATTTAAATAAAAA
1 TAAATTTAAATTAAAA
8980742 TAAATTTAAATTTAAAA
1 TAAATTTAAA-TTAAAA
*
8980759 TAAATTTGAATTTAAAA
1 TAAATTT-AAATTAAAA
8980776 TAAATT
1 TAAATT
8980782 AATTTCAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
16 14 0.29
17 33 0.67
18 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (16 bp):
TAAATTTAAATTAAAA
Found at i:8980750 original size:22 final size:22
Alignment explanation
Indices: 8980721--8980762 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8980711 AATTCAAACT
8980721 TAAATTAAATTT-AAATAAAAA
1 TAAATTAAATTTAAAATAAAAA
8980742 TAAATTTAAATTTAAAATAAA
1 TAAA-TTAAATTTAAAATAAA
8980763 TTTGAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATTAAATTTAAAATAAAAA
Found at i:8980757 original size:33 final size:34
Alignment explanation
Indices: 8980709--8980781 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
8980699 AAATTTGAAT
*
8980709 TAAATTCAAACTTAAATTAAATTT-AAATAAAAA
1 TAAATTCAAACTTAAAATAAATTTGAAATAAAAA
* * * *
8980742 TAAATTTAAATTTAAAATAAATTTGAATTTAAAA
1 TAAATTCAAACTTAAAATAAATTTGAAATAAAAA
8980776 TAAATT
1 TAAATT
8980782 AATTTCAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (34 bp):
TAAATTCAAACTTAAAATAAATTTGAAATAAAAA
Found at i:8981501 original size:200 final size:200
Alignment explanation
Indices: 8981134--8981861 Score: 1066
Period size: 200 Copynumber: 3.6 Consensus size: 200
8981124 CATTAGTTTC
* *
8981134 ATTGACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATGGA
1 ATTG-CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGA
* * * ** *** *
8981199 GCGTTGGTTTGATTTGGTCTTCTTCTCAGTGGCTCATCAGGAAGATGACTGCCTTAATTGTTTCA
65 GC----G-TTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTA
* * * * *
8981264 ATTTGCTTCTCTAGATCTCCTTAAGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGGAG
125 ATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAG
*
8981329 ATAACCATTTT
190 CTAACCATTTT
* * *
8981340 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCCCGCGTTAAG
1 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAG
*
8981405 CGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAAATGACTGCCTCGCTTGTTTTAATTCGC
66 CGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGC
* *
8981470 TTCTCTGGATCTCCTCAAGAAGACAAATTTGGTCCACTTCTCTGTGTCTCGTCAGGAAGCTAACC
131 TTCTCTGGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC
8981535 ATTTT
196 ATTTT
* * *
8981540 ATTACTTCGACCTGCTTCTCAGTTTCTCATCAGGAAGCTGGGTTCGAAGATTTGTTCGCGTTGAG
1 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAG
* * *
8981605 CGTTGAGTTGGTATTCTTCTCTGTATCTCATTAGGAAGATGACCGCCCCGCTTGTTTTAATTCGC
66 CGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGC
*
8981670 TTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC
131 TTCTCTGGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC
8981735 ATTTT
196 ATTTT
*
8981740 ATTGCTTCGACCTGCTTCTCAGTGTCTCAAT-AAGAAGCTGGGTTCGAAGATTTGCTCGCGTTGA
1 ATTGCTTCGACCTGCTTCTCAGTGTCTC-ATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGA
* *
8981804 GCGTTGAGTTAGTATACTTCTCTGTATCTCATCAGGAAGATGA-TCGCCTCGC-TGTTTT
65 GCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACT-GCCTCGCTTGTTTT
8981862 GTTGAACTAC
Statistics
Matches: 475, Mismatches: 45, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
199 6 0.01
200 405 0.85
201 3 0.01
205 57 0.12
206 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (200 bp):
ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAG
CGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGC
TTCTCTGGATCTCCTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC
ATTTT
Found at i:8982412 original size:50 final size:49
Alignment explanation
Indices: 8982353--8982599 Score: 203
Period size: 51 Copynumber: 4.9 Consensus size: 49
8982343 TCCCGTCTGG
* *
8982353 CTTTGTGCGGTACATGGTCTGTTGTTGCGACTTAGACCTTTTCTTTTTGT
1 CTTT-TGCGGTACATGGTCTGTCGTTGCGACTTAGACCTTTTCCTTTTGT
* * *
8982403 CTTTTTGCGGTAC-TGGAT-TCGCCGTTGCGGACTTAGATCTTTTCCGTTGTGT
1 C-TTTTGCGGTACATGG-TCT-GTCGTTGC-GACTTAGACCTTTTCC-TTTTGT
* * * *
8982455 CTTTTGAGGTACACGGTCTGTCGTTGCGACTTAAACCTTTCCCTTTTGT
1 CTTTTGCGGTACATGGTCTGTCGTTGCGACTTAGACCTTTTCCTTTTGT
* * * * * * * *
8982504 CTTTTGCGGTAC-TGGATCCGCCATTGCGGTCTTAGATCTATCCCGTTGTGT
1 CTTTTGCGGTACATGG-TCTGTCGTTGC-GACTTAGACCTTTTCC-TTTTGT
* * * *
8982555 CTTTTGAGGTACACGGTCTGTCGTTGTGACTTAGACCTTTCCCTT
1 CTTTTGCGGTACATGGTCTGTCGTTGCGACTTAGACCTTTTCCTT
8982600 CAAATCTTCG
Statistics
Matches: 155, Mismatches: 31, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
48 2 0.01
49 30 0.19
50 54 0.35
51 58 0.37
52 11 0.07
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.42
Consensus pattern (49 bp):
CTTTTGCGGTACATGGTCTGTCGTTGCGACTTAGACCTTTTCCTTTTGT
Found at i:8982555 original size:100 final size:100
Alignment explanation
Indices: 8982276--8982599 Score: 411
Period size: 100 Copynumber: 3.2 Consensus size: 100
8982266 CTGGATCCGG
* * * * * * * * *
8982276 CGTTGCGGCTTATATCTTTCCCTTATGTC-TTCGCGATACTGGATCTGCCATTGCGGTATTATAT
1 CGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTGCGGTACTGGATCCGCCATTGCGGTCTTAGAT
* *
8982340 CTTTCCCGTCTG-G-CTTTGTGCGGTACATGGTCTGT
66 CTTTCCCGT-TGTGTCTTT-TGAGGTACACGGTCTGT
* * * * * *
8982375 TGTTGCGACTTAGACCTTTTCTTTTTGTCTTTTTGCGGTACTGGATTCGCCGTTGCGGACTTAGA
1 CGTTGCGACTTAGACCTTTCCCTTTTGTC-TTTTGCGGTACTGGATCCGCCATTGCGGTCTTAGA
*
8982440 TCTTTTCCGTTGTGTCTTTTGAGGTACACGGTCTGT
65 TCTTTCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
*
8982476 CGTTGCGACTTAAACCTTTCCCTTTTGTCTTTTGCGGTACTGGATCCGCCATTGCGGTCTTAGAT
1 CGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTGCGGTACTGGATCCGCCATTGCGGTCTTAGAT
*
8982541 CTATCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
66 CTTTCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
*
8982576 CGTTGTGACTTAGACCTTTCCCTT
1 CGTTGCGACTTAGACCTTTCCCTT
8982600 CAAATCTTCG
Statistics
Matches: 192, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
99 22 0.11
100 90 0.47
101 76 0.40
102 4 0.02
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.41
Consensus pattern (100 bp):
CGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTGCGGTACTGGATCCGCCATTGCGGTCTTAGAT
CTTTCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
Found at i:8982566 original size:51 final size:51
Alignment explanation
Indices: 8982263--8982566 Score: 200
Period size: 51 Copynumber: 6.1 Consensus size: 51
8982253 AATCTTCATA
* * * * *
8982263 GTACTGGATCCGGCGTTGCGG-CTTATATCTTTCCC-TTATGTC-TTCGCG
1 GTACTGGATCCGCCGTTGCGGACTTAGATCTTTCCCGTTGTGTCTTTTGAG
* * * * *
8982311 ATACTGGATCTGCCATTGCGGTA-TTATATCTTTCCCGTCTG-G-CTTTGTGCG
1 GTACTGGATCCGCCGTTGCGG-ACTTAGATCTTTCCCGT-TGTGTCTTT-TGAG
* ** * * * * *
8982362 GTACATGG-TCTGTTGTTGC-GACTTAGACCTTT-TCTTTTTGTCTTTTTGCG
1 GTAC-TGGATCCGCCGTTGCGGACTTAGATCTTTCCCGTTGTGTC-TTTTGAG
* *
8982412 GTACTGGATTCGCCGTTGCGGACTTAGATCTTTTCCGTTGTGTCTTTTGAG
1 GTACTGGATCCGCCGTTGCGGACTTAGATCTTTCCCGTTGTGTCTTTTGAG
* * * * * * *
8982463 GTACACGG-TCTGTCGTTGC-GACTTAAACCTTTCCC-TTTTGTCTTTTGCG
1 GTAC-TGGATCCGCCGTTGCGGACTTAGATCTTTCCCGTTGTGTCTTTTGAG
* * *
8982512 GTACTGGATCCGCCATTGCGGTCTTAGATCTATCCCGTTGTGTCTTTTGAG
1 GTACTGGATCCGCCGTTGCGGACTTAGATCTTTCCCGTTGTGTCTTTTGAG
8982563 GTAC
1 GTAC
8982567 ACGGTCTGTC
Statistics
Matches: 195, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
48 20 0.10
49 45 0.23
50 54 0.28
51 64 0.33
52 12 0.06
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.41
Consensus pattern (51 bp):
GTACTGGATCCGCCGTTGCGGACTTAGATCTTTCCCGTTGTGTCTTTTGAG
Found at i:8982620 original size:100 final size:99
Alignment explanation
Indices: 8982276--8982646 Score: 338
Period size: 100 Copynumber: 3.7 Consensus size: 99
8982266 CTGGATCCGG
* * * ** * * *
8982276 CGTTGCGGCTTATATCTTTCCCTTATGTC-TTCGC-GATACTGGATCTGCCATTGCGGTATTATA
1 CGTTGCGACTTAAACCTTTCCCTTAAATCTTTCGCAG-TACTGGATCCGCCATTGCGG-CTTAGA
* *
8982339 TCTTTCCCGTCTG-G-CTTTGTGCGGTACATGGTCTGT
64 TCTTTCCCGT-TGTGTCTTT-TGAGGTACACGGTCTGT
* * * * *** * * * *
8982375 TGTTGCGACTTAGACCTTTTCTTTTTGTCTTTTTGCGGTACTGGATTCGCCGTTGCGGACTTAGA
1 CGTTGCGACTTAAACCTTTCCCTTAAATC-TTTCGCAGTACTGGATCCGCCATTGCGG-CTTAGA
*
8982440 TCTTTTCCGTTGTGTCTTTTGAGGTACACGGTCTGT
64 TCTTTCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
*** * *
8982476 CGTTGCGACTTAAACCTTTCCCTTTTGTCTTTTGCGGTACTGGATCCGCCATTGCGGTCTTAGAT
1 CGTTGCGACTTAAACCTTTCCCTTAAATCTTTCGCAGTACTGGATCCGCCATTGCGG-CTTAGAT
*
8982541 CTATCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
65 CTTTCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
* * * * *
8982576 CGTTGTGACTTAGACCTTTCCCTTCAAATC-TTCGTAGTATTGGATCCGCCATTGTGGCTTAGAT
1 CGTTGCGACTTAAACCTTTCCCTT-AAATCTTTCGCAGTACTGGATCCGCCATTGCGGCTTAGAT
8982640 CTTTCCC
65 CTTTCCC
8982647 TTCATGTTTA
Statistics
Matches: 229, Mismatches: 37, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
99 35 0.15
100 112 0.49
101 77 0.34
102 5 0.02
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.41
Consensus pattern (99 bp):
CGTTGCGACTTAAACCTTTCCCTTAAATCTTTCGCAGTACTGGATCCGCCATTGCGGCTTAGATC
TTTCCCGTTGTGTCTTTTGAGGTACACGGTCTGT
Found at i:8983591 original size:10 final size:10
Alignment explanation
Indices: 8983587--8983628 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
8983577 CTTTTTGTTG
8983587 TTTTTTTTTC
1 TTTTTTTTTC
8983597 TTTTTTTTTC
1 TTTTTTTTTC
8983607 TTTTTTTCTT-
1 TTTTTTT-TTC
*
8983617 TTTCTTTTTC
1 TTTTTTTTTC
8983627 TT
1 TT
8983629 CTTCTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:8983610 original size:6 final size:6
Alignment explanation
Indices: 8983577--8983646 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
8983567 CTTTCGTTCA
* * *
8983577 CTTTTT GTTGTTT TTTTTT CTTTTT -TTTTCT TTTTTT CTTTTT CTTTTT
1 CTTTTT CTT-TTT CTTTTT CTTTTT CTTTT-T CTTTTT CTTTTT CTTTTT
* *
8983626 CTTCTT C-TATT -TTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTT
8983647 ATTCATTGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
5 10 0.19
6 33 0.63
7 9 0.17
ACGTcount: A:0.01, C:0.13, G:0.03, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:8983649 original size:13 final size:13
Alignment explanation
Indices: 8983597--8983649 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
8983587 TTTTTTTTTC
*
8983597 TTTTT-TTTTCTT
1 TTTTTCTTTTATT
*
8983609 TTTTTCTTTTTCTT
1 TTTTTC-TTTTATT
*
8983623 TTTCTTCTTCTATT
1 TTT-TTCTTTTATT
8983637 TTTTTCTTTTATT
1 TTTTTCTTTTATT
8983650 CATTGAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 5 0.14
13 9 0.26
14 18 0.51
15 3 0.09
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTATT
Found at i:8985850 original size:6 final size:6
Alignment explanation
Indices: 8985839--8985917 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 6
8985829 TACCATAATA
* * * * *
8985839 TTAAAT TTAAA- TTCAAT TCAAAC TTAAA- TTAAAT TTAAA- TCAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
8985884 ATAAAT TTAAAT TTATAA- -TAAAT TTGAAT TTAAA
1 TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAA
8985918 ATAAACTTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
4 2 0.04
5 15 0.27
6 36 0.65
7 2 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:8985888 original size:17 final size:17
Alignment explanation
Indices: 8985839--8985945 Score: 97
Period size: 17 Copynumber: 6.3 Consensus size: 17
8985829 TACCATAATA
* *
8985839 TTAAATTTAAATTCAAT
1 TTAAATTTAAAATAAAT
* * *
8985856 TCAAACTTAAATTAAAT
1 TTAAATTTAAAATAAAT
**
8985873 TTAAATCAAAAATAAAT
1 TTAAATTTAAAATAAAT
*
8985890 TTAAATTTATAATAAAT
1 TTAAATTTAAAATAAAT
* *
8985907 TTGAATTTAAAATAAAC
1 TTAAATTTAAAATAAAT
* **
8985924 TTAATTTTAAAGCAAAT
1 TTAAATTTAAAATAAAT
8985941 TTAAA
1 TTAAA
8985946 ACGGTTTGGG
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 70 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:8985897 original size:23 final size:23
Alignment explanation
Indices: 8985840--8985898 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
8985830 ACCATAATAT
* * **
8985840 TAAATTTAAATTCAATTCAAACT
1 TAAATTTAAATTTAAATCAAAAA
8985863 TAAA-TTAAATTTAAATCAAAAA
1 TAAATTTAAATTTAAATCAAAAA
8985885 TAAATTTAAATTTA
1 TAAATTTAAATTTA
8985899 TAATAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATTTAAATTTAAATCAAAAA
Found at i:8987169 original size:49 final size:48
Alignment explanation
Indices: 8987052--8987222 Score: 164
Period size: 49 Copynumber: 3.5 Consensus size: 48
8987042 AATCTAATAC
* * * * *
8987052 CCTAGAGATATGAAGAGAAAGGTTGAAGCCACAACGGCGAACCTTGCA
1 CCTAGAGATATGAAGGGAAAGATTGAAGCTACAACGGTGAACCTTGTA
* ** * * * *
8987100 CCTTAGGGACGTGATA-GGAAAGATTGAAGTTGCGACGGTGAATCTTGTA
1 CC-TAGAGATATGA-AGGGAAAGATTGAAGCTACAACGGTGAACCTTGTA
* * *
8987149 CCCTAGAGTTATGGAGGGAAAGGTTGAAGCTACAACGGTGAACCTTGTA
1 -CCTAGAGATATGAAGGGAAAGATTGAAGCTACAACGGTGAACCTTGTA
*
8987198 CCTAGAGATGTGAAGGGAAAGATTG
1 CCTAGAGATATGAAGGGAAAGATTG
8987223 GGCCGTAACG
Statistics
Matches: 93, Mismatches: 26, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
48 24 0.26
49 66 0.71
50 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (48 bp):
CCTAGAGATATGAAGGGAAAGATTGAAGCTACAACGGTGAACCTTGTA
Found at i:8987580 original size:40 final size:38
Alignment explanation
Indices: 8987519--8987732 Score: 195
Period size: 40 Copynumber: 5.4 Consensus size: 38
8987509 TACAATCATC
*
8987519 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCAT
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGA-CAT
*
8987558 CAGATCTTTTACCCTAACCAGAGGACAGATTGAAGACCAT
1 CA-ATCTTTTACCCTAACCAGAGGGCAGATTGAAGA-CAT
** **
8987598 CTAATCTTTTACCCCGATTATG-GGGCAGATTGAAG-CAT
1 C-AATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACAT
8987636 CCAATCTTTTACCCTAACCATGA-GGCAGATTGAAGTA-ATT
1 -CAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG-ACA-T
* * *
8987676 CAGATCTTTTATCCTAACTAGAGGGTAGATTGAAGTA-AT
1 CA-ATCTTTTACCCTAACCAGAGGGCAGATTGAAG-ACAT
8987715 CCAATCTTTTAACCCTAA
1 -CAATCTTTT-ACCCTAA
8987733 AGCTATAGAG
Statistics
Matches: 148, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
38 31 0.21
39 16 0.11
40 99 0.67
41 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (38 bp):
CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAT
Found at i:8987683 original size:78 final size:78
Alignment explanation
Indices: 8987515--8987732 Score: 218
Period size: 78 Copynumber: 2.8 Consensus size: 78
8987505 AAGTTACAAT
* *
8987515 CATCCAATCTTTTACCCTAA-TCAGAGGGCAGATTGAAGACCAT-CAGATCTTTTACCCTAACCA
1 CATCTAATCTTTTACCCCAACT-AGAGGGCAGATTGAAGA-CATCCA-ATCTTTTACCCTAACCA
8987578 GAGGACAGATTGAAGA
63 GAGGACAGATTGAAGA
* *
8987594 CCATCTAATCTTTTACCCCGATTATG-GGGCAGATTGAAG-CATCCAATCTTTTACCCTAACCAT
1 -CATCTAATCTTTTACCCCAACTA-GAGGGCAGATTGAAGACATCCAATCTTTTACCCTAACCA-
8987657 GAGG-CAGATTGAAGTA
63 GAGGACAGATTGAAG-A
* * *
8987673 -AT-TCAGATCTTTTATCCTAACTAGAGGGTAGATTGAAGTA-ATCCAATCTTTTAACCCTAA
1 CATCT-A-ATCTTTTACCCCAACTAGAGGGCAGATTGAAG-ACATCCAATCTTTT-ACCCTAA
8987733 AGCTATAGAG
Statistics
Matches: 119, Mismatches: 8, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
76 1 0.01
77 4 0.03
78 55 0.46
79 19 0.16
80 38 0.32
81 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (78 bp):
CATCTAATCTTTTACCCCAACTAGAGGGCAGATTGAAGACATCCAATCTTTTACCCTAACCAGAG
GACAGATTGAAGA
Found at i:8987937 original size:50 final size:50
Alignment explanation
Indices: 8987728--8987905 Score: 259
Period size: 50 Copynumber: 3.6 Consensus size: 50
8987718 ATCTTTTAAC
* ** * * *
8987728 CCTAAAGCTATAGAGGAACAGATTGAAACCACAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATACA
* *
8987778 CCTGAAGCTGTAGAGGGGCAGAATGAACCCGCAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATACA
*
8987828 CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATTCA
1 CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATACA
8987878 CCTAAAGCTGTAGAGGGGCA-AATTGAAG
1 CCTAAAGCTGTAGAGGGGCAGAA-TGAAG
8987906 TCACAAGGAC
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
49 2 0.02
50 115 0.98
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCATACA
Found at i:8988012 original size:40 final size:40
Alignment explanation
Indices: 8987959--8988289 Score: 336
Period size: 40 Copynumber: 8.4 Consensus size: 40
8987949 AGTTACAACC
* *
8987959 TCCAATCTCTTACCCTAATTAGAGGGCAGATTGAAGATCAA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGA-CAA
* * * *
8988000 T-CGATCTTTTACCCCAATCATG-GGGCAGATTGAAAACTA
1 TCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAGACAA
* *
8988039 TCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* *
8988079 TCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGGCAA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* * *
8988119 TCCAATCTCTTACCCCAATCA-TGGGCAGATTGAA-ACAA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* *
8988157 TCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAG-CAA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* * * * * *
8988196 TCTAATCTTTTACTCTAACCAGAGGGCATATTAAAGACTA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* * * * *
8988236 T-CAGATCTCTTACCCTGACCATGA-CGCAGATTGAA-ATAA
1 TCCA-ATCTTTTACCCTAATCA-GAGGGCAGATTGAAGACAA
8988275 TCCAATCTTTTACCC
1 TCCAATCTTTTACCC
8988290 CTAAAGTTAT
Statistics
Matches: 242, Mismatches: 39, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
38 21 0.09
39 76 0.31
40 141 0.58
41 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (40 bp):
TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
Found at i:8988265 original size:118 final size:118
Alignment explanation
Indices: 8987959--8988289 Score: 353
Period size: 118 Copynumber: 2.8 Consensus size: 118
8987949 AGTTACAACC
* ** * * * * *
8987959 TCCAATCTCTTACCCTAATTAGAGGGCAGATTGAAGATCAAT-CGATCTTTTACCCCAATCATGG
1 TCCAATCTTTTACCCTAACCAAAGGGCAGATTAAAGA-CAATCCAATCTCTTACCCCAACCAT-G
* * * * *
8988023 GGCAGATTGAAAACTATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCA
64 CGCAGATTG-AAACAATCCAATCTTTTACCCTAACCAAAGGGCAAATTGAAGACAA
* * * * *
8988079 TCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGGCAATCCAATCTCTTACCCCAATCATGGG
1 TCCAATCTTTTACCCTAACCAAAGGGCAGATTAAAGACAATCCAATCTCTTACCCCAACCATGCG
*
8988144 CAGATTGAAACAATCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAG-CAA
66 CAGATTGAAACAATCCAATCTTTTACCCTAACCAAAGGGCAAATTGAAGACAA
* * * * * **
8988196 TCTAATCTTTTACTCTAACCAGAGGGCATATTAAAGACTAT-CAGATCTCTTACCCTGACCATGA
1 TCCAATCTTTTACCCTAACCAAAGGGCAGATTAAAGACAATCCA-ATCTCTTACCCCAACCATG-
*
8988260 CGCAGATTGAAATAATCCAATCTTTTACCC
64 CGCAGATTGAAACAATCCAATCTTTTACCC
8988290 CTAAAGTTAT
Statistics
Matches: 184, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
116 2 0.01
117 51 0.28
118 66 0.36
119 14 0.08
120 51 0.28
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (118 bp):
TCCAATCTTTTACCCTAACCAAAGGGCAGATTAAAGACAATCCAATCTCTTACCCCAACCATGCG
CAGATTGAAACAATCCAATCTTTTACCCTAACCAAAGGGCAAATTGAAGACAA
Found at i:8988592 original size:154 final size:154
Alignment explanation
Indices: 8988312--8988646 Score: 519
Period size: 154 Copynumber: 2.2 Consensus size: 154
8988302 AGGGACAGAT
* * * ** * * *
8988312 TGAAGCTACAAAAGTAAATCTTATACCTTTAAAGTTGTAGAGAGAAGGATTAAAACTCACAGTAG
1 TGAAGCTACAGAAGCAAATCCTATACCCCTAAAATTGTAAAAAGAAGGATTAAAACTCACAGTAG
*
8988377 TAGACCTCGATCTTCACTGAAGTTGCAAAAAAATAGAGTGAAGCTACGAAGGCGAATCCTTATCT
66 TAGACCTCGATCTTCACTAAAGTTGCAAAAAAATAGAGTGAAGCTACGAAGGCGAATCCTTATCT
*
8988442 CTCTGAAGCTGCGGTAGAGCAAGA
131 CTCTGAAGCTGCAGTAGAGCAAGA
* *
8988466 TGAAGCTACAGAAGCAAATCCTATACCCCTAAAATTGTAAAAAGACGGATTAAAACTCATAGTAG
1 TGAAGCTACAGAAGCAAATCCTATACCCCTAAAATTGTAAAAAGAAGGATTAAAACTCACAGTAG
*
8988531 TAGACCTCGATCTTCACTAAAGTTGCAAAGAAATAGAGTGAAGCTACGAAGGCGAATCCTTATCT
66 TAGACCTCGATCTTCACTAAAGTTGCAAAAAAATAGAGTGAAGCTACGAAGGCGAATCCTTATCT
* *
8988596 TTCTGAAGTTGCAGTAGAGCAAGA
131 CTCTGAAGCTGCAGTAGAGCAAGA
8988620 TGAAGCTACAAGAA-CAAATCCTATACC
1 TGAAGCTAC-AGAAGCAAATCCTATACC
8988647 TTTGAAGTTA
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 161 0.98
155 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (154 bp):
TGAAGCTACAGAAGCAAATCCTATACCCCTAAAATTGTAAAAAGAAGGATTAAAACTCACAGTAG
TAGACCTCGATCTTCACTAAAGTTGCAAAAAAATAGAGTGAAGCTACGAAGGCGAATCCTTATCT
CTCTGAAGCTGCAGTAGAGCAAGA
Found at i:9001948 original size:19 final size:19
Alignment explanation
Indices: 9001924--9001981 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
9001914 GGTCAATACG
9001924 ATGTCAACTTGTGA-GAGCA
1 ATGTCAACTTGT-ATGAGCA
* *
9001943 ATGTCAAATTGTATGTGCA
1 ATGTCAACTTGTATGAGCA
* *
9001962 ATGTCAGCTTGTATGTGCA
1 ATGTCAACTTGTATGAGCA
9001981 A
1 A
9001982 CCCTGATCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 1 0.03
19 33 0.97
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (19 bp):
ATGTCAACTTGTATGAGCA
Found at i:9020543 original size:22 final size:22
Alignment explanation
Indices: 9020518--9020575 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
9020508 AAAATGTTAA
*
9020518 AAAAATATTTTTTATATTTTTT
1 AAAAATATTTTTTATAATTTTT
* *
9020540 AAAAA-ATGATTTTAAAATTTTT
1 AAAAATAT-TTTTTATAATTTTT
*
9020562 -AAAATAATTTTTAT
1 AAAAATATTTTTTAT
9020576 TGAAATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
AAAAATATTTTTTATAATTTTT
Found at i:9020552 original size:23 final size:22
Alignment explanation
Indices: 9020508--9020588 Score: 58
Period size: 23 Copynumber: 3.6 Consensus size: 22
9020498 TAAAATTTAG
* *
9020508 AAAATGTTAAAAAAATATTTTTT
1 AAAATTTTTAAAAAATA-TTTTT
* *
9020531 ATATTTTTTAAAAAATGA-TTTT
1 AAAATTTTTAAAAAAT-ATTTTT
*
9020553 AAAATTTTTAAAATAATTTTTATT
1 AAAATTTTTAAAA-AATATTT-TT
*
9020577 GAAA-TTTTAAAA
1 AAAATTTTTAAAA
9020589 TTTTAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
22 15 0.33
23 25 0.54
24 6 0.13
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
AAAATTTTTAAAAAATATTTTT
Found at i:9033323 original size:4 final size:4
Alignment explanation
Indices: 9033314--9033343 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
9033304 ATTAGGAACA
9033314 TCAC TCAC TCAC TCAC TCAC TCAC TCAC TC
1 TCAC TCAC TCAC TCAC TCAC TCAC TCAC TC
9033344 CCTTGATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (4 bp):
TCAC
Found at i:9036698 original size:16 final size:16
Alignment explanation
Indices: 9036679--9036709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9036669 TAAATTTAAT
*
9036679 AAATTTTATATTTTTG
1 AAATTTTAAATTTTTG
9036695 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
9036710 TTAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AAATTTTAAATTTTTG
Found at i:9043983 original size:2 final size:2
Alignment explanation
Indices: 9043976--9044003 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9043966 AAAAGAAAGA
9043976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9044004 GAAGGCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9062615 original size:6 final size:6
Alignment explanation
Indices: 9062604--9062646 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
9062594 AGCAGTGGAG
* * *
9062604 AAAATT AAAATT AAAATT AAAATT -GAATT AAAAAT AAGATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
9062647 GAGTTGGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:9069250 original size:12 final size:13
Alignment explanation
Indices: 9069233--9069261 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9069223 TATTGTCAAG
9069233 GCACCTGCACC-T
1 GCACCTGCACCTT
9069245 GCACCTGCACCTT
1 GCACCTGCACCTT
9069258 GCAC
1 GCAC
9069262 ATCAAGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.48, G:0.17, T:0.17
Consensus pattern (13 bp):
GCACCTGCACCTT
Found at i:9072169 original size:48 final size:48
Alignment explanation
Indices: 9072096--9072192 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
9072086 AGGTTGTGGG
* * *
9072096 GAAAATCCGCTGCCAAAGTCTTTGCTACTGTTTATGGAGTCAAACCTT
1 GAAAACCCGCTGCCAAAATCCTTGCTACTGTTTATGGAGTCAAACCTT
*
9072144 GAAAACCCGCTGCCAAAATCCTTGCTACTGTTTATGGAGTCAAATCTT
1 GAAAACCCGCTGCCAAAATCCTTGCTACTGTTTATGGAGTCAAACCTT
9072192 G
1 G
9072193 TGAGCCCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (48 bp):
GAAAACCCGCTGCCAAAATCCTTGCTACTGTTTATGGAGTCAAACCTT
Found at i:9076973 original size:2 final size:2
Alignment explanation
Indices: 9076968--9077001 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9076958 TGTATGTACC
9076968 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9077002 TATTTGAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9080953 original size:5 final size:5
Alignment explanation
Indices: 9080943--9080971 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9080933 TGGTGAGATC
9080943 GAGGA GAGGA GAGGA GAGGA GAGGA GAGG
1 GAGGA GAGGA GAGGA GAGGA GAGGA GAGG
9080972 TGAAGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GAGGA
Found at i:9081297 original size:16 final size:16
Alignment explanation
Indices: 9081276--9081314 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
9081266 ATTTGGTTCG
9081276 CTGTAATGAAATAGAA
1 CTGTAATGAAATAGAA
*
9081292 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAA
9081308 CTGTAAT
1 CTGTAAT
9081315 TAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (16 bp):
CTGTAATGAAATAGAA
Found at i:9081553 original size:58 final size:56
Alignment explanation
Indices: 9081484--9081629 Score: 179
Period size: 58 Copynumber: 2.5 Consensus size: 56
9081474 AATTTTAATG
*
9081484 ATTATTATTAAATATAATTTAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATATGTAATTTA-ATAA-TAT-TTTTAACATA
* *
9081542 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAAT-AAA-AATATGTAATTTAATAATATTTTTAACATA
*
9081600 ATTATTATTAAAATATGAA-TTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTTAATAAAAAT
9081630 TATAATATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 3 0.04
58 43 0.55
59 15 0.19
60 10 0.13
61 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (56 bp):
ATTATTATTAAATATAATTTAATAAAAATATGTAATTTAATAATATTTTTAACATA
Found at i:9085593 original size:28 final size:26
Alignment explanation
Indices: 9085561--9085619 Score: 93
Period size: 25 Copynumber: 2.2 Consensus size: 26
9085551 ATATTAATTC
9085561 CCTAAAACTTGTAGTCTTATTTCTTAAT
1 CCTAAAAC-TG-AGTCTTATTTCTTAAT
9085589 CCT-AAACTGAGTCTTATTTCTTAAT
1 CCTAAAACTGAGTCTTATTTCTTAAT
9085614 CCTAAA
1 CCTAAA
9085620 CTAATATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 19 0.63
26 4 0.13
27 4 0.13
28 3 0.10
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (26 bp):
CCTAAAACTGAGTCTTATTTCTTAAT
Found at i:9085607 original size:25 final size:25
Alignment explanation
Indices: 9085573--9085621 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9085563 TAAAACTTGT
9085573 AGTCTTATTTCTTAATCCTAAACTG
1 AGTCTTATTTCTTAATCCTAAACTG
9085598 AGTCTTATTTCTTAATCCTAAACT
1 AGTCTTATTTCTTAATCCTAAACT
9085622 AATATACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (25 bp):
AGTCTTATTTCTTAATCCTAAACTG
Found at i:9086695 original size:139 final size:139
Alignment explanation
Indices: 9086445--9086864 Score: 770
Period size: 139 Copynumber: 3.0 Consensus size: 139
9086435 AGCAACACTT
* *
9086445 AATATTTAGGTCTCAAAACACAGTTTTTGCAAACATGGTTGTGCAGAATCAGAAGCAACATAATA
1 AATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAGAATCAGAAGCAACATAATA
9086510 TTTGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
66 TTTGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
9086575 CAGAATGTC
131 CAGAATGTC
9086584 AATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAGAATCAGAAGCAACATAATA
1 AATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAGAATCAGAAGCAACATAATA
*
9086649 TTTGTACAACCAGCAACACATTGAACCCCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
66 TTTGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
*
9086714 AAGAATGTC
131 CAGAATGTC
* *
9086723 AATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAAAATCGGAAGCAACATAATA
1 AATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAGAATCAGAAGCAACATAATA
9086788 TTTGTACAA-CAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
66 TTTGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
*
9086852 CAGAATGGC
131 CAGAATGTC
9086861 AATA
1 AATA
9086865 GATGATGACT
Statistics
Matches: 272, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
138 65 0.24
139 207 0.76
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (139 bp):
AATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAGAATCAGAAGCAACATAATA
TTTGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAA
CAGAATGTC
Found at i:9089165 original size:13 final size:12
Alignment explanation
Indices: 9089141--9089174 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
9089131 TTTTAAGTTA
9089141 ATATTATAAAATT
1 ATATTAT-AAATT
9089154 ATATCTATAAATT
1 ATAT-TATAAATT
9089167 ATATTATA
1 ATATTATA
9089175 TTTAAGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 13 0.65
14 3 0.15
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTATAAATT
Found at i:9103096 original size:19 final size:19
Alignment explanation
Indices: 9103044--9103089 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
9103034 CCAAAAGTTA
9103044 TATTTATTATTTATTATCT
1 TATTTATTATTTATTATCT
9103063 T-TTTATTATTTTATTAT-T
1 TATTTATTA-TTTATTATCT
9103081 TATTTATTA
1 TATTTATTA
9103090 GTCTATTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTATTATTTATTATCT
Found at i:9104371 original size:22 final size:23
Alignment explanation
Indices: 9104322--9104371 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
9104312 ATTCTTCTCC
* **
9104322 AGTTAAATTTTATTATTTTTTCTT
1 AGTTAAATTTTA-TATTATTTCAG
9104346 AGTTAAATTTTA-ATTATTTCAG
1 AGTTAAATTTTATATTATTTCAG
9104368 AGTT
1 AGTT
9104372 TTTTTTAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
24 12 0.52
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (23 bp):
AGTTAAATTTTATATTATTTCAG
Found at i:9107182 original size:18 final size:18
Alignment explanation
Indices: 9107159--9107202 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
9107149 GTGATTGGGC
9107159 ATTGGTTCAGTACATGGA
1 ATTGGTTCAGTACATGGA
9107177 ATTGGTTCAGTACATGGA
1 ATTGGTTCAGTACATGGA
*
9107195 TTTGGTTC
1 ATTGGTTC
9107203 CATTGTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (18 bp):
ATTGGTTCAGTACATGGA
Found at i:9109589 original size:23 final size:20
Alignment explanation
Indices: 9109547--9109586 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9109537 TTGAATGTTA
*
9109547 TTTAATGATTAAATAATATT
1 TTTAATAATTAAATAATATT
*
9109567 TTTAATAATTAAATGATATT
1 TTTAATAATTAAATAATATT
9109587 ATTGATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAATAATTAAATAATATT
Found at i:9110021 original size:17 final size:19
Alignment explanation
Indices: 9109980--9110024 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9109970 ATATTTATAT
*
9109980 ATATATTATACTTTTTTAA
1 ATATTTTATACTTTTTTAA
9109999 ATATTTTATA-TTTTTTAGA
1 ATATTTTATACTTTTTTA-A
9110018 AT-TTTTA
1 ATATTTTA
9110025 AGAATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
ATATTTTATACTTTTTTAA
Found at i:9116084 original size:21 final size:21
Alignment explanation
Indices: 9116060--9116099 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9116050 TTTAAAATAT
*
9116060 AAACACTTTAATTTTTTAAGA
1 AAACACTTTAATTATTTAAGA
9116081 AAACACTTTAATTATTTAA
1 AAACACTTTAATTATTTAA
9116100 TAATGATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (21 bp):
AAACACTTTAATTATTTAAGA
Found at i:9124532 original size:48 final size:50
Alignment explanation
Indices: 9124436--9124541 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 50
9124426 TTCTTTTTAG
* *
9124436 ATATTGATATATTATCTCTTCTGAATTTTCAACTAATTTTGTACTACCAA
1 ATATTGATATATTATCTCCTCTGAACTTTCAACTAATTTTGTACTACCAA
* * *
9124486 ATATTGATATATT-TTTCCTC-GAACTTTCGACTAGTTTTGTACTACCAA
1 ATATTGATATATTATCTCCTCTGAACTTTCAACTAATTTTGTACTACCAA
9124534 ATATTGAT
1 ATATTGAT
9124542 TTAAATTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 33 0.65
49 5 0.10
50 13 0.25
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.45
Consensus pattern (50 bp):
ATATTGATATATTATCTCCTCTGAACTTTCAACTAATTTTGTACTACCAA
Found at i:9130259 original size:24 final size:25
Alignment explanation
Indices: 9130232--9130279 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
9130222 TTTTTTTAAT
*
9130232 AAAAAGAATATAA-AAAAAATTATG
1 AAAAAGAATAAAAGAAAAAATTATG
* *
9130256 AAAATGAGTAAAAGAAAAAATTAT
1 AAAAAGAATAAAAGAAAAAATTAT
9130280 TTATGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (25 bp):
AAAAAGAATAAAAGAAAAAATTATG
Found at i:9131331 original size:35 final size:36
Alignment explanation
Indices: 9131285--9131360 Score: 145
Period size: 35 Copynumber: 2.1 Consensus size: 36
9131275 ATCTAATAAG
9131285 AAGTAGTTTTAGTAGAACTAAACTTT-TTGTTGACT
1 AAGTAGTTTTAGTAGAACTAAACTTTCTTGTTGACT
9131320 AAGTAGTTTTAGTAGAACTAAACTTTCTTGTTGACT
1 AAGTAGTTTTAGTAGAACTAAACTTTCTTGTTGACT
9131356 AAGTA
1 AAGTA
9131361 AAATAAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 26 0.65
36 14 0.35
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (36 bp):
AAGTAGTTTTAGTAGAACTAAACTTTCTTGTTGACT
Found at i:9134439 original size:49 final size:50
Alignment explanation
Indices: 9134362--9134459 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
9134352 TACTCAACAG
* *
9134362 CTACACTTCTTCTAATCGACCTTAATTAGAATAAGG-TTTTTCAACCTTA
1 CTACACTTCATCTAATCGACATTAATTAGAATAAGGTTTTTTCAACCTTA
* * *
9134411 CTACACTTCATCTATTTGACATTGATTAGAATAAGGTTTTTTCAACCTT
1 CTACACTTCATCTAATCGACATTAATTAGAATAAGGTTTTTTCAACCTT
9134460 TAAATAGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 31 0.72
50 12 0.28
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (50 bp):
CTACACTTCATCTAATCGACATTAATTAGAATAAGGTTTTTTCAACCTTA
Found at i:9139582 original size:30 final size:30
Alignment explanation
Indices: 9139531--9139587 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9139521 TTTCAATTTC
*
9139531 GAAATTGAGTAAATTAGTTTTT-TTAAAAA
1 GAAATTGAGTAAATTAATTTTTATTAAAAA
*
9139560 GAAATTAGAGTCAATTAATTTTTATTAA
1 GAAATT-GAGTAAATTAATTTTTATTAA
9139588 TTTTGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 14 0.58
31 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (30 bp):
GAAATTGAGTAAATTAATTTTTATTAAAAA
Found at i:9144789 original size:5 final size:6
Alignment explanation
Indices: 9144751--9144825 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
9144741 TTTAAAATTT
* * *
9144751 ATTTAA ATTTAG ATTT-A TTTTAA ATATCTAA ATTT-A ATTTGA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA ATTTAA
*
9144799 ATTTAA ATAAATAA ATATTAA ATTTAA
1 ATTTAA AT--TTAA AT-TTAA ATTTAA
9144826 CATTAAAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.14
6 30 0.54
7 8 0.14
8 10 0.18
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:9145024 original size:15 final size:15
Alignment explanation
Indices: 9145004--9145034 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9144994 GCCTATGCTG
9145004 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
9145019 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
9145034 C
1 C
9145035 CAACCACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:9146836 original size:30 final size:30
Alignment explanation
Indices: 9146801--9147102 Score: 398
Period size: 30 Copynumber: 10.2 Consensus size: 30
9146791 ATCATCTTTC
*
9146801 GACCCCGAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* * *
9146831 TACCCCGAAACTTTTCCAAAATTATATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
9146861 GACCCCAAAACTTTTCCAGAATTATATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
9146891 GACCCCAAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* * * * *
9146921 AACCTCGATACTTTTCCAAAATTATA-TTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
*
9146950 GACCCCAAAACTTTTCCAAAATTATATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
9146980 AACCCCGAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
9147010 GACCCCAAAATTTTTCCAAAATTATATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
*
9147040 GACCCCAAAACTTTTCCAATATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
9147070 GACCCC-AAAC--TTCCAAAAATTACCATTTT
1 GACCCCAAAACTTTTCC-AAAATTA-CATTTT
9147099 -ACCC
1 GACCC
9147103 TCGAAGCTTC
Statistics
Matches: 242, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
27 4 0.02
28 10 0.04
29 35 0.14
30 193 0.80
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
GACCCCAAAACTTTTCCAAAATTACATTTT
Found at i:9147098 original size:119 final size:118
Alignment explanation
Indices: 9146801--9147107 Score: 404
Period size: 119 Copynumber: 2.6 Consensus size: 118
9146791 ATCATCTTTC
* *
9146801 GACCCCGAAACTTTTCCAAAATTACATTTTTACCCCGAAACTTTTCCAAAATTATATTTTGACCC
1 GACCCCGAAACTTTTCCAAAATTACATTTTGACCCCAAAAC-TTTCCAAAATTATATTTT-ACCC
* * *
9146866 CAAAACTTTTCCAGAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
64 CGAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
* * * *
9146921 AACCTCGATACTTTTCCAAAATTATA-TTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCC
1 GACCCCGAAACTTTTCCAAAATTACATTTTGACCCCAAAAC-TTTCCAAAATTATATTTT-ACCC
* *
9146985 CGAAACTTTTCCAAAATTACATTTTGACCCCAAAATTTTTCCAAAATTATATTTT
64 CGAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
* * *
9147040 GACCCCAAAACTTTTCCAATATTACATTTTGACCCC-AAAC-TTCCAAAAATTACCATTTTACCC
1 GACCCCGAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCC-AAAATTA-TATTTTACCC
9147103 TCGAA
64 -CGAA
9147108 GCTTCTAAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
117 4 0.02
118 11 0.07
119 118 0.72
120 31 0.19
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (118 bp):
GACCCCGAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCAAAATTATATTTTACCCCG
AAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
Found at i:9147146 original size:29 final size:29
Alignment explanation
Indices: 9147114--9147207 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
9147104 CGAAGCTTCT
*
9147114 AAAATTCTATTTTTAACCCCGATTTCACC
1 AAAATTCCATTTTTAACCCCGATTTCACC
* **
9147143 AAAAATTACCA-TTTTACCCCCGAATCTT--TT
1 -AAAATT-CCATTTTTAACCCCG-AT-TTCACC
*
9147173 AAAATTCCGTTTTTAACCCCGATTTCACC
1 AAAATTCCATTTTTAACCCCGATTTCACC
9147202 AAAATT
1 AAAATT
9147208 ACCACTTTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
27 2 0.04
28 4 0.08
29 22 0.44
30 16 0.32
31 4 0.08
32 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGATTTCACC
Found at i:9147147 original size:59 final size:59
Alignment explanation
Indices: 9147082--9147222 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
9147072 CCCCAAACTT
* *
9147082 CCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATTCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * *
9147141 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
* *
9147200 CC-AAAATTACCACTTTGCCCCCG
1 CCAAAAATTACCATTTTACCCCCG
9147223 GGTATCCATA
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
58 19 0.25
59 56 0.75
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:9147241 original size:58 final size:59
Alignment explanation
Indices: 9147082--9147257 Score: 171
Period size: 59 Copynumber: 3.0 Consensus size: 59
9147072 CCCCAAACTT
* * * * **
9147082 CCAAAAATTACCATTTTACCCTCGAAGCTTC-TAAAATTCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCACTTTACCCCCGAATC-TCATAAAATCCCGTTTTTAACCCCGATTTCA
* ** *
9147141 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCA
1 CCAAAAATTACCACTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCA
* * * *
9147200 CC-AAAATTACCACTTTGCCCCCGGGTATC-CAT-AAGTCCCGTTTTTCACCCCGATTTCA
1 CCAAAAATTACCACTTTACCCCC--GAATCTCATAAAATCCCGTTTTTAACCCCGATTTCA
9147258 TCATTTATCA
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
58 42 0.42
59 55 0.54
60 4 0.04
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCACTTTACCCCCGAATCTCATAAAATCCCGTTTTTAACCCCGATTTCA
Found at i:9159266 original size:68 final size:68
Alignment explanation
Indices: 9159157--9160068 Score: 1590
Period size: 68 Copynumber: 13.4 Consensus size: 68
9159147 TGCAGGTCAC
* *
9159157 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATGACACGTCTTCGTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159222 GAG
66 GAG
*
9159225 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159290 GAG
66 GAG
*
9159293 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159358 GAG
66 GAG
*
9159361 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159426 GAG
66 GAG
*
9159429 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159494 GAG
66 GAG
*
9159497 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159562 GAG
66 GAG
* * *
9159565 CAATGTCATCCTCTTGAAATTGAAGTAGAGTGAATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159630 GAG
66 GAG
* * *
9159633 CAATGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACATCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159698 GAG
66 GAG
*
9159701 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
9159766 GAA
66 GAG
9159769 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159834 GAAG
66 G-AG
*
9159838 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
9159903 GAA
66 GAG
9159906 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9159971 GAAG
66 G-AG
* * * * *
9159975 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAATTGAAGTGA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
9160040 GAG
66 GAG
* *
9160043 CAACGTCATCCTCTTGGAATTGAAGT
1 CAACGTCATCCCCTTGAAATTGAAGT
9160069 GAAGTTGGAC
Statistics
Matches: 816, Mismatches: 26, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
68 688 0.84
69 128 0.16
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAG
Found at i:9160407 original size:5 final size:6
Alignment explanation
Indices: 9160369--9160443 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
9160359 TTTAAAATTT
* * *
9160369 ATTTAA ATTTAG ATTT-A TTTTAA ATATCTAA ATTT-A ATTTGA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA ATTTAA
*
9160417 ATTTAA ATAAATAA ATATTAA ATTTAA
1 ATTTAA AT--TTAA AT-TTAA ATTTAA
9160444 CATTAAAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.14
6 30 0.54
7 8 0.14
8 10 0.18
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:9160642 original size:15 final size:15
Alignment explanation
Indices: 9160622--9160652 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9160612 GCCTATGCTG
9160622 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
9160637 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
9160652 C
1 C
9160653 CAACCACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:9161196 original size:16 final size:16
Alignment explanation
Indices: 9161152--9161200 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
9161142 GAGCTAATGT
9161152 AAAATAATATTAAT-A
1 AAAATAATATTAATAA
* *
9161167 ATAATAACTTTTAATAA
1 AAAATAA-TATTAATAA
9161184 AAAATAATATTAATAA
1 AAAATAATATTAATAA
9161200 A
1 A
9161201 TATGGGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.21
16 15 0.54
17 7 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATATTAATAA
Found at i:9162449 original size:30 final size:30
Alignment explanation
Indices: 9162410--9162695 Score: 357
Period size: 30 Copynumber: 9.6 Consensus size: 30
9162400 AAAAATCATC
*
9162410 TTTTGACCCCGAAACTTTTCCAAAATTACT
1 TTTTGACCCCAAAACTTTTCCAAAATTACT
* *
9162440 TTTTTACCCCAAAACTTTTTCAAAATTA-T
1 TTTTGACCCCAAAACTTTTCCAAAATTACT
* *
9162469 ATTTTAACCCTAAAACTTTTCCAAAATTA-T
1 -TTTTGACCCCAAAACTTTTCCAAAATTACT
*
9162499 ATTTTGACCCCGAAACTTTTCCAAAATTA-T
1 -TTTTGACCCCAAAACTTTTCCAAAATTACT
*
9162529 ATTTTGACCCCAAAACTTTTCCAAAATTACA
1 -TTTTGACCCCAAAACTTTTCCAAAATTACT
** *
9162560 TTTTGACCCTGATACTTTTCCAAAATTA-T
1 TTTTGACCCCAAAACTTTTCCAAAATTACT
* *
9162589 ATTTGACCCCAAAACTTTTCCAAAATTACA
1 TTTTGACCCCAAAACTTTTCCAAAATTACT
*
9162619 TTTTGACCCTAAAACTTTTCCAAAATTA-T
1 TTTTGACCCCAAAACTTTTCCAAAATTACT
*
9162648 ATTTTGACCCCAAAACTTTTCCAAAATTACA
1 -TTTTGACCCCAAAACTTTTCCAAAATTACT
* *
9162679 TTTTAACCCTAAAACTT
1 TTTTGACCCCAAAACTT
9162696 CCAAAAATTA
Statistics
Matches: 224, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
29 25 0.11
30 199 0.89
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTTGACCCCAAAACTTTTCCAAAATTACT
Found at i:9162494 original size:60 final size:60
Alignment explanation
Indices: 9162401--9162695 Score: 448
Period size: 60 Copynumber: 4.9 Consensus size: 60
9162391 AAATTGTCTA
* * * * * * *
9162401 AAAATCATCTTTTGACCCCGAAACTTTTCCAAAATTACTTTTTTACCCCAAAACTTTTTC
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
* * * **
9162461 AAAATTATATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
* *
9162521 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTGATACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
9162581 AAAATTATA-TTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
*
9162640 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTT
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTT
9162696 CCAAAAATTA
Statistics
Matches: 216, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
59 57 0.26
60 159 0.74
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
Found at i:9162645 original size:119 final size:120
Alignment explanation
Indices: 9162401--9162695 Score: 448
Period size: 119 Copynumber: 2.5 Consensus size: 120
9162391 AAATTGTCTA
* * * * * * *
9162401 AAAATCATCTTTTGACCCCGAAACTTTTCCAAAATTACTTTTTTACCCCAAAACTTTTTCAAAAT
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAAT
* * *
9162466 TATATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTTCC
66 TATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
9162521 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTGATACTTTTCCAAAAT
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAAT
* *
9162586 TATA-TTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCC
66 TATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCC
9162640 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTT
1 AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTT
9162696 CCAAAAATTA
Statistics
Matches: 158, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
119 98 0.62
120 60 0.38
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.37
Consensus pattern (120 bp):
AAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAAT
TATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:9165845 original size:22 final size:23
Alignment explanation
Indices: 9165813--9165877 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
9165803 ATCCGACCCA
*
9165813 TATAATTTTTAAAATATTTT-TT
1 TATAATATTTAAAATATTTTATT
* *
9165835 TATAATATTTATATTATTTTATT
1 TATAATATTTAAAATATTTTATT
*
9165858 T-TAATATTT-AACTATTTTAT
1 TATAATATTTAAAATATTTTAT
9165878 ACATTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 9 0.24
22 25 0.68
23 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TATAATATTTAAAATATTTTATT
Found at i:9166080 original size:21 final size:21
Alignment explanation
Indices: 9166054--9166101 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
9166044 GGATCGGCCG
9166054 AGCTCGGGTCTTGAATGTTCA
1 AGCTCGGGTCTTGAATGTTCA
9166075 AGCTCGGGTCTTGAATGTTCA
1 AGCTCGGGTCTTGAATGTTCA
9166096 AGCTCG
1 AGCTCG
9166102 AGTCCAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (21 bp):
AGCTCGGGTCTTGAATGTTCA
Found at i:9168151 original size:9 final size:9
Alignment explanation
Indices: 9168137--9168211 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
9168127 GACATGTAAC
9168137 AAAAAATAA
1 AAAAAATAA
9168146 AAAAAATAA
1 AAAAAATAA
*
9168155 AAATCAATAA
1 AAA-AAATAA
**
9168165 AAAGTATAGA
1 AAAAAATA-A
*
9168175 AAAATATTAA
1 AAAA-AATAA
*
9168185 AAAAAATATT
1 AAAAAATA-A
*
9168195 AAAAACTAA
1 AAAAAATAA
*
9168204 GAAAAATA
1 AAAAAATA
9168212 TTTAGAATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
9 24 0.48
10 24 0.48
11 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.19
Consensus pattern (9 bp):
AAAAAATAA
Found at i:9168189 original size:12 final size:12
Alignment explanation
Indices: 9168174--9168199 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9168164 AAAAGTATAG
9168174 AAAAATATTAAA
1 AAAAATATTAAA
9168186 AAAAATATTAAA
1 AAAAATATTAAA
9168198 AA
1 AA
9168200 CTAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATATTAAA
Found at i:9168207 original size:31 final size:33
Alignment explanation
Indices: 9168153--9168213 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
9168143 TAAAAAAAAT
*
9168153 AAAAATCAATAAAAAGTATAGAAAAATATTAAA
1 AAAAATCAATAAAAACTATAGAAAAATATTAAA
*
9168186 AAAAAT-ATTAAAAACTA-AGAAAAATATT
1 AAAAATCAATAAAAACTATAGAAAAATATT
9168214 TAGAATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.42
32 9 0.35
33 6 0.23
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (33 bp):
AAAAATCAATAAAAACTATAGAAAAATATTAAA
Found at i:9168240 original size:20 final size:20
Alignment explanation
Indices: 9168217--9168268 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
9168207 AAATATTTAG
9168217 AATTTACTAAAAATAG-AAAA
1 AATTTA-TAAAAATAGTAAAA
*
9168237 AA-TTATAAAAAATAGTAAAG
1 AATTTAT-AAAAATAGTAAAA
9168257 AATTTATAAAAA
1 AATTTATAAAAA
9168269 AAATTGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 12 0.43
21 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AATTTATAAAAATAGTAAAA
Found at i:9168277 original size:23 final size:21
Alignment explanation
Indices: 9168225--9168298 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
9168215 AGAATTTACT
* *
9168225 AAAAATAGAAAAAATTAT--A
1 AAAAATAGTAAAGATTATAAA
9168244 AAAAATAGTAAAGAATTTATAAA
1 AAAAATAGTAAAG-A-TTATAAA
*
9168267 AAAAATTGTAAAGATTATAAA
1 AAAAATAGTAAAGATTATAAA
* *
9168288 ATATATAGTAA
1 AAAAATAGTAA
9168299 TATAGGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.24
20 1 0.02
21 19 0.42
22 1 0.02
23 13 0.29
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
AAAAATAGTAAAGATTATAAA
Found at i:9187125 original size:13 final size:14
Alignment explanation
Indices: 9187097--9187129 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9187087 TAAATTTTAA
*
9187097 AAAATATTATTTTT
1 AAAATATTATTATT
9187111 AAAAT-TTATTATT
1 AAAATATTATTATT
9187124 AAAATA
1 AAAATA
9187130 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATTATTATT
Found at i:9187148 original size:18 final size:18
Alignment explanation
Indices: 9187110--9187145 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9187100 ATATTATTTT
*
9187110 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
9187128 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
9187146 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:9190213 original size:16 final size:17
Alignment explanation
Indices: 9190192--9190225 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9190182 TGTTTGTGTA
9190192 TAATTTG-CTTATTTTT
1 TAATTTGTCTTATTTTT
9190208 TAATTTGTTCTTATTTTT
1 TAATTTG-TCTTATTTTT
9190226 GGTAACCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
TAATTTGTCTTATTTTT
Found at i:9195604 original size:17 final size:17
Alignment explanation
Indices: 9195591--9195655 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
9195581 TTTAATTTTG
* *
9195591 AATTTAAATTAATTTTT
1 AATTTAAATTAAATTTA
*
9195608 AATTT-ATTTAAATTTA
1 AATTTAAATTAAATTTA
**
9195624 AATTTATTTTAAATTTA
1 AATTTAAATTAAATTTA
*
9195641 AATTTAAATCAAATT
1 AATTTAAATTAAATT
9195656 ATGAAAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 13 0.32
17 27 0.68
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTAAATTAAATTTA
Found at i:9195626 original size:27 final size:28
Alignment explanation
Indices: 9195581--9195649 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
9195571 GACTTTATGT
* *
9195581 TTTAATTTTGAATTTAAATTAATTTTTAA
1 TTTAA-TTTAAATTTAAATTAATTTTAAA
*
9195610 TTT-ATTTAAATTTAAATTTATTTTAAA
1 TTTAATTTAAATTTAAATTAATTTTAAA
9195637 TTTAAATTTAAAT
1 TTT-AATTTAAAT
9195650 CAAATTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 23 0.66
28 1 0.03
29 11 0.31
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTAATTTAAATTTAAATTAATTTTAAA
Found at i:9195627 original size:16 final size:17
Alignment explanation
Indices: 9195580--9195646 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
9195570 GGACTTTATG
* *
9195580 TTTTAATTTTGAATTTA
1 TTTTAAATTTAAATTTA
** * *
9195597 AATTAATTTTTAATTTA
1 TTTTAAATTTAAATTTA
9195614 -TTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
9195630 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
9195647 AATCAAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.30
17 30 0.70
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:9195645 original size:33 final size:33
Alignment explanation
Indices: 9195581--9195646 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
9195571 GACTTTATGT
* * * *
9195581 TTTAATTTTGAATTTAAATTAATTTTTAATTTA
1 TTTAAATTTAAATTTAAATTAAATTTAAATTTA
**
9195614 TTTAAATTTAAATTTATTTTAAATTTAAATTTA
1 TTTAAATTTAAATTTAAATTAAATTTAAATTTA
9195647 AATCAAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (33 bp):
TTTAAATTTAAATTTAAATTAAATTTAAATTTA
Found at i:9195648 original size:6 final size:6
Alignment explanation
Indices: 9195581--9195649 Score: 65
Period size: 6 Copynumber: 12.2 Consensus size: 6
9195571 GACTTTATGT
* * * *
9195581 TTTAAT TTTGAA TTTAAA -TTAAT TTTTAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
9195626 TTT-AT TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
9195650 CAAATTATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
4 4 0.08
5 8 0.16
6 39 0.76
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:9195657 original size:27 final size:28
Alignment explanation
Indices: 9195581--9195675 Score: 72
Period size: 27 Copynumber: 3.4 Consensus size: 28
9195571 GACTTTATGT
* * * *
9195581 TTTAATTTTGAATTTAAATTAATTTTTAA
1 TTTAAATTTAAATTCAAATT-ATTTTAAA
*
9195610 TTT--ATTTAAATTTAAATTTATTTTAAA
1 TTTAAATTTAAATTCAAA-TTATTTTAAA
**
9195637 TTTAAATTTAAA-TCAAATTA-TGAAAA
1 TTTAAATTTAAATTCAAATTATTTTAAA
9195663 TATTAAATTTAAA
1 T-TTAAATTTAAA
9195676 CATTAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
26 5 0.09
27 35 0.62
28 6 0.11
29 10 0.18
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (28 bp):
TTTAAATTTAAATTCAAATTATTTTAAA
Found at i:9197812 original size:29 final size:30
Alignment explanation
Indices: 9197772--9197923 Score: 189
Period size: 30 Copynumber: 5.0 Consensus size: 30
9197762 TTTAACCAAA
* *
9197772 CCTAAAACTTTTCCAAAATTACATTTTGAC
1 CCTAAAACTTTTCTAATATTACATTTTGAC
* *
9197802 CCTAAAATTTTTCTAATATTACATTTTAAAAC
1 CCTAAAACTTTTCTAATATTACATTTT--GAC
* * * *
9197834 CCCAAAACTTTTCCAAAATTACATTTTAAC
1 CCTAAAACTTTTCTAATATTACATTTTGAC
*
9197864 CCTAAAACTTTTCTAATATTACA-CTTGAC
1 CCTAAAACTTTTCTAATATTACATTTTGAC
*
9197893 CCCAAAACTTTTCTAATATTACATTTTGAC
1 CCTAAAACTTTTCTAATATTACATTTTGAC
9197923 C
1 C
9197924 TCGATTTTGC
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 26 0.25
30 53 0.51
32 25 0.24
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (30 bp):
CCTAAAACTTTTCTAATATTACATTTTGAC
Found at i:9197841 original size:62 final size:59
Alignment explanation
Indices: 9197775--9197923 Score: 217
Period size: 62 Copynumber: 2.5 Consensus size: 59
9197765 AACCAAACCT
* *
9197775 AAAACTTTTCCAAAATTACATTTTGACCCTAAAATTTTTCTAATATTACATTTTAAAACCCC
1 AAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCTAATATTACA-CTT--AACCCC
* *
9197837 AAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCTAATATTACACTTGACCCC
1 AAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCTAATATTACACTTAACCCC
* *
9197896 AAAACTTTTCTAATATTACATTTTGACC
1 AAAACTTTTCCAAAATTACATTTTGACC
9197924 TCGATTTTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
59 30 0.38
61 2 0.03
62 48 0.60
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (59 bp):
AAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCTAATATTACACTTAACCCC
Found at i:9207240 original size:6 final size:6
Alignment explanation
Indices: 9207229--9207253 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9207219 CCCAAATATC
9207229 CACCAT CACCAT CACCAT CACCAT C
1 CACCAT CACCAT CACCAT CACCAT C
9207254 TGATCTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CACCAT
Found at i:9214034 original size:21 final size:21
Alignment explanation
Indices: 9213996--9214035 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9213986 AATAACGATG
*
9213996 GTGATGAGATTAGTTACTGCA
1 GTGATGAGATTAGATACTGCA
*
9214017 GTGATGAGATTGGATACTG
1 GTGATGAGATTAGATACTG
9214036 TAACTGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (21 bp):
GTGATGAGATTAGATACTGCA
Found at i:9218943 original size:23 final size:23
Alignment explanation
Indices: 9218917--9219037 Score: 165
Period size: 23 Copynumber: 5.2 Consensus size: 23
9218907 ACACTAGCGC
9218917 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
9218940 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
9218963 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
9218988 GCTCTCTGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
9219011 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
9219034 GCTC
1 GCTC
9219038 AGCACTTTGT
Statistics
Matches: 88, Mismatches: 4, Indels: 12
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.05
23 63 0.72
24 1 0.01
25 17 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:9218986 original size:48 final size:46
Alignment explanation
Indices: 9218917--9219037 Score: 181
Period size: 48 Copynumber: 2.6 Consensus size: 46
9218907 ACACTAGCGC
*
9218917 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGT-GT
*
9218963 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGT
*
9219011 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
9219038 AGCACTTTGT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 26 0.38
48 42 0.61
49 1 0.01
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGT
Found at i:9219064 original size:14 final size:16
Alignment explanation
Indices: 9219022--9219065 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
9219012 CTCTCTGATT
9219022 AGCACTTTGTGTGCTC
1 AGCACTTTGTGTGCTC
9219038 AGCACTTTGTGTGCTC
1 AGCACTTTGTGTGCTC
*
9219054 AGTACTTTGTGT
1 AGCACTTTGTGT
9219066 ACTCTCTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (16 bp):
AGCACTTTGTGTGCTC
Found at i:9219087 original size:23 final size:23
Alignment explanation
Indices: 9219052--9219145 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
9219042 CTTTGTGTGC
*
9219052 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
9219075 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
9219098 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
9219123 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
9219145 T
1 T
9219146 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:9219271 original size:56 final size:56
Alignment explanation
Indices: 9219185--9219297 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
9219175 AGTCTACTAT
9219185 GGGCCAAGTGGACAAATAAGATAAGTGAGCTATGGTTAAGAAAGCTATGATGGCTA
1 GGGCCAAGTGGACAAATAAGATAAGTGAGCTATGGTTAAGAAAGCTATGATGGCTA
9219241 GGGCCAAGTGGACAAATAAGATAAGTGAGCTATGGTTAAGAAAGCTATGATGGCTA
1 GGGCCAAGTGGACAAATAAGATAAGTGAGCTATGGTTAAGAAAGCTATGATGGCTA
9219297 G
1 G
9219298 ATTGTGAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.21
Consensus pattern (56 bp):
GGGCCAAGTGGACAAATAAGATAAGTGAGCTATGGTTAAGAAAGCTATGATGGCTA
Found at i:9222733 original size:16 final size:16
Alignment explanation
Indices: 9222712--9222754 Score: 77
Period size: 16 Copynumber: 2.6 Consensus size: 16
9222702 GCTCCGATTT
9222712 TCATTCGCTTTTTCAC
1 TCATTCGCTTTTTCAC
9222728 TCATTCGCTTTTTCAC
1 TCATTCGCTTTTTCAC
9222744 TCATTCTGCTT
1 TCATTC-GCTT
9222755 CCAAATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.12, C:0.30, G:0.07, T:0.51
Consensus pattern (16 bp):
TCATTCGCTTTTTCAC
Found at i:9223348 original size:18 final size:18
Alignment explanation
Indices: 9223327--9223365 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9223317 GAACAAAACT
9223327 TAAAATTAGGTTAAAATC
1 TAAAATTAGGTTAAAATC
* *
9223345 TAAACTTAGGTTAAAGTC
1 TAAAATTAGGTTAAAATC
9223363 TAA
1 TAA
9223366 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (18 bp):
TAAAATTAGGTTAAAATC
Found at i:9224908 original size:31 final size:31
Alignment explanation
Indices: 9224872--9224930 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9224862 TTTTTTGTCC
* *
9224872 AATTTGGTACTCAAACTTGACACTTTTTCTT
1 AATTTGATACTCAAACTTGACAATTTTTCTT
*
9224903 AATTTGATACTTAAACTTGACAATTTTT
1 AATTTGATACTCAAACTTGACAATTTTT
9224931 TAAGTTGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (31 bp):
AATTTGATACTCAAACTTGACAATTTTTCTT
Found at i:9224946 original size:29 final size:31
Alignment explanation
Indices: 9224875--9224949 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
9224865 TTTGTCCAAT
* * *
9224875 TTGGTACTCAAACTTGACACTTTTTCTTAAT
1 TTGGTACTTAAACTTGACACATTTTCTTAAG
*
9224906 TTGATACTTAAACTTGACA-ATTTT-TTAAG
1 TTGGTACTTAAACTTGACACATTTTCTTAAG
*
9224935 TTGGTATTTAAACTT
1 TTGGTACTTAAACTT
9224950 TTTGGGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 17 0.45
30 4 0.11
31 17 0.45
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (31 bp):
TTGGTACTTAAACTTGACACATTTTCTTAAG
Found at i:9225242 original size:26 final size:26
Alignment explanation
Indices: 9225213--9225262 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9225203 TAATTTCAAG
*
9225213 TACCAAATTAAATAAAAAAAATTAGA
1 TACCAAATTAAAAAAAAAAAATTAGA
9225239 TACCAAATTAAAAAAAAAAAATTA
1 TACCAAATTAAAAAAAAAAAATTA
9225263 AGTTCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.22
Consensus pattern (26 bp):
TACCAAATTAAAAAAAAAAAATTAGA
Found at i:9226529 original size:2 final size:2
Alignment explanation
Indices: 9226522--9226558 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9226512 CTCTGGAAAT
9226522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9226559 TAAAAGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9226972 original size:15 final size:16
Alignment explanation
Indices: 9226952--9226995 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
9226942 TAAAAAGGTA
*
9226952 TAAAATTATA-AATAT
1 TAAAATAATATAATAT
9226967 TAAAATAATATAATA-
1 TAAAATAATATAATAT
*
9226982 TAATATAATATAAT
1 TAAAATAATATAAT
9226996 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATATAATAT
Found at i:9226981 original size:5 final size:5
Alignment explanation
Indices: 9226971--9226995 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9226961 AAATATTAAA
9226971 ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT
9226996 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:9228066 original size:20 final size:20
Alignment explanation
Indices: 9228029--9228067 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9228019 TTTCCTTTTT
* *
9228029 TTCACTCCCTCCCTCCTTCC
1 TTCACTCCCTCACACCTTCC
9228049 TTCACTCCCTCACACCTTC
1 TTCACTCCCTCACACCTTC
9228068 ACTCCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.56, G:0.00, T:0.33
Consensus pattern (20 bp):
TTCACTCCCTCACACCTTCC
Found at i:9236806 original size:3 final size:3
Alignment explanation
Indices: 9236798--9236823 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9236788 CAAGTTGACC
9236798 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
9236824 ATTTATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9242898 original size:20 final size:20
Alignment explanation
Indices: 9242873--9242911 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9242863 TGTAAAATTT
9242873 ATTAAT-AAGTATTTTATATA
1 ATTAATGAA-TATTTTATATA
9242893 ATTAATGAATATTTTATAT
1 ATTAATGAATATTTTATAT
9242912 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTAATGAATATTTTATATA
Found at i:9245040 original size:31 final size:31
Alignment explanation
Indices: 9245005--9245070 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
9244995 TATTTCTTAT
*
9245005 TTAATTTAATATATAAATTTGACAGTTTTTC
1 TTAATTTAATATATAAATTTGACACTTTTTC
** * *
9245036 TTAATTTGTTATTTAAATTTGACTCTTTTTC
1 TTAATTTAATATATAAATTTGACACTTTTTC
9245067 TTAA
1 TTAA
9245071 GTTGGTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (31 bp):
TTAATTTAATATATAAATTTGACACTTTTTC
Found at i:9245080 original size:31 final size:31
Alignment explanation
Indices: 9245018--9245082 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
9245008 ATTTAATATA
* * *
9245018 TAAATTTGACAGTTTTTCTTAATTTGTTATT
1 TAAATTTGACACTTTTTCTTAAGTTGGTATT
*
9245049 TAAATTTGACTCTTTTTCTTAAGTTGGTATT
1 TAAATTTGACACTTTTTCTTAAGTTGGTATT
9245080 TAA
1 TAA
9245083 TTTTTTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (31 bp):
TAAATTTGACACTTTTTCTTAAGTTGGTATT
Found at i:9256985 original size:19 final size:19
Alignment explanation
Indices: 9256961--9257013 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
9256951 ATATGCTGGA
9256961 AATTATTTTATTAGCTAT-T
1 AATTATTTTATTA-CTATAT
*
9256980 AATTATTCATATTACTATAT
1 AATTATT-TTATTACTATAT
*
9257000 ATTATATTTTATTA
1 AAT-TATTTTATTA
9257014 ATCTCAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 11 0.39
20 13 0.46
21 4 0.14
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTATTTTATTACTATAT
Found at i:9261430 original size:16 final size:18
Alignment explanation
Indices: 9261403--9261436 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9261393 TAGAATTGAG
9261403 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
9261420 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
9261437 AATTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:9268130 original size:17 final size:18
Alignment explanation
Indices: 9268106--9268151 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
9268096 AACCAATTGA
9268106 ATATATTTTATATTTTTT
1 ATATATTTTATATTTTTT
9268124 A-ATATTTTAT-TTTTTT
1 ATATATTTTATATTTTTT
*
9268140 ATAAATTTTATA
1 ATATATTTTATA
9268152 CTATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 7 0.28
17 17 0.68
18 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATATTTTATATTTTTT
Found at i:9288153 original size:16 final size:18
Alignment explanation
Indices: 9288114--9288147 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9288104 TAAGTTTATA
9288114 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
9288131 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
9288148 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:9288280 original size:27 final size:26
Alignment explanation
Indices: 9288221--9288289 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
9288211 TAAGATAACT
* **
9288221 ATATAAAAATTATATAAATTTATTTT
1 ATATAAAAATTATATAAAATTATTCG
* *
9288247 TTATAAAAATTGTATAAAATTATTCG
1 ATATAAAAATTATATAAAATTATTCG
* *
9288273 ATATTAAAATAATATAA
1 ATATAAAAATTATATAA
9288290 TATAAATATT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (26 bp):
ATATAAAAATTATATAAAATTATTCG
Found at i:9288966 original size:2 final size:2
Alignment explanation
Indices: 9288959--9288988 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9288949 CAACAAATGC
9288959 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9288989 GCAACTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9292944 original size:29 final size:29
Alignment explanation
Indices: 9292913--9292969 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
9292903 GAATTAGATC
9292913 AAATCAAAATATCATGTATAAAATTACACA
1 AAATCAAAAT-TCATGTATAAAATTACACA
* *
9292943 AAATCAAAGTTCATGTATATAATTACA
1 AAATCAAAATTCATGTATAAAATTACA
9292970 TATTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTACACA
Found at i:9303501 original size:28 final size:28
Alignment explanation
Indices: 9303455--9303509 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
9303445 TTAATTAACT
* *
9303455 ATAAAAAATTTTC-ATTTTAGACACCTAA
1 ATAAAAAATTTGCAATTTAAGA-ACCTAA
*
9303483 ATAAAAAGTTTGCAATTTAAGAACCTA
1 ATAAAAAATTTGCAATTTAAGAACCTA
9303510 CATTTGCGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (28 bp):
ATAAAAAATTTGCAATTTAAGAACCTAA
Found at i:9303663 original size:20 final size:20
Alignment explanation
Indices: 9303640--9303696 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
9303630 GAAATATATT
* *
9303640 AAAATATAAAAATATTTTCA
1 AAAATATAAAAATAATTTAA
9303660 AAAATA-AAATAATAAATTTAA
1 AAAATATAAA-AAT-AATTTAA
9303681 AAATATATAAAAATAA
1 AAA-ATATAAAAATAA
9303697 AAAATATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
21 10 0.32
22 6 0.19
23 3 0.10
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATATAAAAATAATTTAA
Found at i:9303682 original size:32 final size:29
Alignment explanation
Indices: 9303641--9303702 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 29
9303631 AAATATATTA
*
9303641 AAATATAAAAATATTTTCAAAAATAAAATAAT
1 AAATATAAAAATA-TAT-AAAAATAAAA-AAT
*
9303673 AAATTTAAAAATATATAAAAATAAAAAAT
1 AAATATAAAAATATATAAAAATAAAAAAT
9303702 A
1 A
9303703 TTGTTGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 10 0.36
31 2 0.07
32 12 0.43
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (29 bp):
AAATATAAAAATATATAAAAATAAAAAAT
Found at i:9303685 original size:50 final size:51
Alignment explanation
Indices: 9303631--9303749 Score: 163
Period size: 52 Copynumber: 2.3 Consensus size: 51
9303621 AAATTCAAAG
* *
9303631 AAATATATTAAAATATAAAAATATT-TT-CAA-AAATAAAATAATAAATTTAA
1 AAATATATAAAAATA-AAAAATATTGTTACAATAAATAAAATAAAAAATTT-A
*
9303681 AAATATATAAAAATAAAAAATATTGTTGACAATAAATAATATAAAAAATTTA
1 AAATATATAAAAATAAAAAATATTGTT-ACAATAAATAAAATAAAAAATTTA
9303733 AAATATATAAAAATAAA
1 AAATATATAAAAATAAA
9303750 TATTTTTAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
49 9 0.15
50 16 0.26
52 21 0.34
53 16 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (51 bp):
AAATATATAAAAATAAAAAATATTGTTACAATAAATAAAATAAAAAATTTA
Found at i:9303695 original size:22 final size:23
Alignment explanation
Indices: 9303643--9303697 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
9303633 ATATATTAAA
*
9303643 ATATAAAAAT-ATTTTCAAAAAT
1 ATATAAAAATAAATTTCAAAAAT
*
9303665 A-A-AATAATAAATTT-AAAAAT
1 ATATAAAAATAAATTTCAAAAAT
9303685 ATATAAAAATAAA
1 ATATAAAAATAAA
9303698 AAATATTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 12 0.44
21 6 0.22
22 9 0.33
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
ATATAAAAATAAATTTCAAAAAT
Found at i:9303747 original size:52 final size:49
Alignment explanation
Indices: 9303617--9303749 Score: 160
Period size: 52 Copynumber: 2.6 Consensus size: 49
9303607 GACCTAATTT
* *
9303617 TAAAAAATTCAAAGAAATATATTAAAATATAAAAATATTTTCAAAAATAAAA
1 TAAAAAATT-TAA-AAATATATAAAAATA-AAAAATATTTTCAAAAATAAAA
* *
9303669 TAATAAATTTAAAAATATATAAAAATAAAAAATATTGTTGACAATAAATAATA
1 TAAAAAATTTAAAAATATATAAAAATAAAAAATATT-TT--CAA-AAATAAAA
9303722 TAAAAAATTT-AAAATATATAAAAATAAA
1 TAAAAAATTTAAAAATATATAAAAATAAA
9303750 TATTTTTAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
49 9 0.12
50 16 0.22
51 2 0.03
52 29 0.40
53 16 0.22
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (49 bp):
TAAAAAATTTAAAAATATATAAAAATAAAAAATATTTTCAAAAATAAAA
Found at i:9311936 original size:20 final size:21
Alignment explanation
Indices: 9311913--9311966 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
9311903 AAAAATTATA
*
9311913 AAAATATTCAAAAT-AGTTTT
1 AAAATATTCAAAATAACTTTT
*
9311933 AAAAAATTCAAAATAACTTTT
1 AAAATATTCAAAATAACTTTT
*
9311954 AAAAT-TTTAAAAT
1 AAAATATTCAAAAT
9311967 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATATTCAAAATAACTTTT
Found at i:9311937 original size:21 final size:21
Alignment explanation
Indices: 9311911--9311957 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
9311901 CAAAAAATTA
*
9311911 TAAAAATATTCAAAAT-AGTTT
1 TAAAAA-ATTCAAAATAACTTT
9311932 TAAAAAATTCAAAATAACTTT
1 TAAAAAATTCAAAATAACTTT
9311953 TAAAA
1 TAAAA
9311958 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAAATTCAAAATAACTTT
Found at i:9318318 original size:24 final size:24
Alignment explanation
Indices: 9318257--9318319 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
9318247 AGAATTAATC
* * *
9318257 TTTCAGTTAAACTATGTTTATTTG
1 TTTCAGTTAAACTCTATTTAGTTG
*
9318281 TTTCAATTAAACTCTATTTAGTTG
1 TTTCAGTTAAACTCTATTTAGTTG
*
9318305 TTTGAGTTAAACTCT
1 TTTCAGTTAAACTCT
9318320 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTAGTTG
Found at i:9319631 original size:7 final size:7
Alignment explanation
Indices: 9319621--9319680 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
9319611 AAATTGAGGT
9319621 TTGAAAA
1 TTGAAAA
9319628 TTGAAAA
1 TTGAAAA
9319635 TT-AAAGA
1 TTGAAA-A
9319642 TTGAAAA
1 TTGAAAA
9319649 TAT-AAAA
1 T-TGAAAA
9319656 TT-AGAAA
1 TTGA-AAA
**
9319663 TTGAGGA
1 TTGAAAA
9319670 TTGAAAA
1 TTGAAAA
9319677 TTGA
1 TTGA
9319681 GGATTGAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 5 0.11
7 34 0.77
8 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (7 bp):
TTGAAAA
Done.