Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 13
Found at i:1329413 original size:15 final size:15
Alignment explanation
Indices: 1329374--1329413 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
1329364 AGTTAAGTTA
*
1329374 ATTTTGAATTAGATT
1 ATTTTGAGTTAGATT
1329389 ATTTTGAGTTAGATT
1 ATTTTGAGTTAGATT
*
1329404 ATTTTTAGTT
1 ATTTTGAGTT
1329414 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (15 bp):
ATTTTGAGTTAGATT
Found at i:1329511 original size:16 final size:16
Alignment explanation
Indices: 1329492--1329523 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1329482 TCGAGTTCGA
*
1329492 ATTATTTTAGGTTTGG
1 ATTATTTTAGATTTGG
1329508 ATTATTTTAGATTTGG
1 ATTATTTTAGATTTGG
1329524 GTCAATCAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (16 bp):
ATTATTTTAGATTTGG
Found at i:1333965 original size:20 final size:20
Alignment explanation
Indices: 1333940--1333992 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1333930 ATAATTAAAA
1333940 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
1333960 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
1333980 GTATCGATACATA
1 GTATCGATACATA
1333993 AAGGTTGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:1334089 original size:13 final size:13
Alignment explanation
Indices: 1334071--1334095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1334061 ATATTGCTTA
1334071 GTATCGATACATT
1 GTATCGATACATT
1334084 GTATCGATACAT
1 GTATCGATACAT
1334096 GTTCATAGTA
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):
GTATCGATACATT
Found at i:1334113 original size:32 final size:33
Alignment explanation
Indices: 1334052--1334113 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
1334042 CACCCAGATA
* *
1334052 TATCGATACATATTGCTTAGTATCGATACATTG
1 TATCGATACATATTGCATAGTATCAATACATTG
*
1334085 TATCGATACATGTT-CATAGTATCAATACA
1 TATCGATACATATTGCATAGTATCAATACA
1334114 CCTTAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
TATCGATACATATTGCATAGTATCAATACATTG
Found at i:1334132 original size:20 final size:19
Alignment explanation
Indices: 1334081--1334133 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
1334071 GTATCGATAC
** *
1334081 ATTGTATCGATACATGTTC
1 ATTGTATCGATACACCTTA
* *
1334100 ATAGTATCAATACACCTTAA
1 ATTGTATCGATACACCTT-A
1334120 ATTGTATCGATACA
1 ATTGTATCGATACA
1334134 TAAAACTGGC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACACCTTA
Found at i:1339308 original size:11 final size:11
Alignment explanation
Indices: 1339288--1339317 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1339278 GGCTAAAAAA
1339288 ATTAACTTTTT
1 ATTAACTTTTT
*
1339299 ATTAATTTTTT
1 ATTAACTTTTT
1339310 ATTAACTT
1 ATTAACTT
1339318 GAAAGCCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTAACTTTTT
Found at i:1348993 original size:66 final size:66
Alignment explanation
Indices: 1348868--1348993 Score: 234
Period size: 66 Copynumber: 1.9 Consensus size: 66
1348858 ATAACCTTTT
*
1348868 ATATAAACTAATTGAATAACATTAGTTAGAATACCAAAAAAGTCAATATCTTTACCTTTACAATT
1 ATATAAACTAATTGAATAACATTAGTTAGAATACCAAAAAAGTCAATATCTTCACCTTTACAATT
1348933 C
66 C
*
1348934 ATATAAACTAATTGAATAACATTAGTTAGAATACCAAAAAAGTCAATATCTTCATCTTTA
1 ATATAAACTAATTGAATAACATTAGTTAGAATACCAAAAAAGTCAATATCTTCACCTTTA
1348994 TGATTCCTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (66 bp):
ATATAAACTAATTGAATAACATTAGTTAGAATACCAAAAAAGTCAATATCTTCACCTTTACAATT
C
Found at i:1354722 original size:13 final size:12
Alignment explanation
Indices: 1354704--1354809 Score: 56
Period size: 13 Copynumber: 8.2 Consensus size: 12
1354694 ATATAAAATT
1354704 AAAAAATAATAA
1 AAAAAATAATAA
*
1354716 AACAAAAAAATAA
1 AA-AAAATAATAA
*
1354729 AAAAGAATCATAA
1 AAAA-AATAATAA
1354742 AAATTAAAT--TAA
1 AAA--AAATAATAA
*
1354754 AAATAAAAAATAA
1 AAA-AAATAATAA
* *
1354767 AAATAATCAAAAA
1 AAAAAAT-AATAA
1354780 ATAAAAATTAATAA
1 A-AAAAA-TAATAA
1354794 AAATCAAATAA-AA
1 AAA--AAATAATAA
1354807 AAA
1 AAA
1354810 TCATGAAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
11 4 0.05
12 12 0.16
13 38 0.51
14 15 0.20
15 5 0.07
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (12 bp):
AAAAAATAATAA
Found at i:1354725 original size:24 final size:23
Alignment explanation
Indices: 1354698--1354783 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
1354688 TTTTTTATAT
1354698 AAAATTAAAAAATAATAAAACAAA
1 AAAATTAAAAAATAATAAAA-AAA
* *
1354722 AAAA-TAAAAAAGAATCATAAAAAT
1 AAAATTAAAAAATAAT-A-AAAAAA
*
1354746 TAAATT-AAAAATAA-AAAATAAA
1 AAAATTAAAAAATAATAAAA-AAA
*
1354768 AATAATCAAAAAATAA
1 AA-AATTAAAAAATAA
1354784 AAATTAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 3 0.06
22 4 0.08
23 13 0.27
24 25 0.51
25 4 0.08
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (23 bp):
AAAATTAAAAAATAATAAAAAAA
Found at i:1354775 original size:37 final size:37
Alignment explanation
Indices: 1354696--1354813 Score: 107
Period size: 37 Copynumber: 3.1 Consensus size: 37
1354686 CATTTTTTAT
* *
1354696 ATAAAATTAAAAAATAATAAAACAAAAAAATAAAAAAGAATC
1 ATAAAAATAAAAATTAAT--AA-AAAAAAAT-AAAAA-AATC
*
1354738 ATAAAAAT-TAAATTAA-AAATAAAAAATAAAAATAATC
1 ATAAAAATAAAAATTAATAAA-AAAAAATAAAAA-AATC
*
1354775 A-AAAAATAAAAATTAATAAAAATCAAATAAAAAAATC
1 ATAAAAATAAAAATTAATAAAAA-AAAATAAAAAAATC
1354812 AT
1 AT
1354814 GAAATGCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
36 6 0.09
37 25 0.38
38 21 0.32
41 6 0.09
42 7 0.11
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (37 bp):
ATAAAAATAAAAATTAATAAAAAAAAATAAAAAAATC
Found at i:1354784 original size:24 final size:24
Alignment explanation
Indices: 1354752--1354809 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1354742 AAATTAAATT
1354752 AAAAATAAAAAATAA-AAATAATCA
1 AAAAATAAAAAATAATAAA-AATCA
*
1354776 AAAAATAAAAATTAATAAAAATCA
1 AAAAATAAAAAATAATAAAAATCA
*
1354800 AATAA-AAAAA
1 AAAAATAAAAA
1354810 TCATGAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 5 0.16
24 23 0.74
25 3 0.10
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAATAAAAAATAATAAAAATCA
Found at i:1354791 original size:18 final size:16
Alignment explanation
Indices: 1354755--1354796 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 16
1354745 TTAAATTAAA
1354755 AATAAAAAATAAAAAT
1 AATAAAAAATAAAAAT
1354771 AATCAAAAAATAAAAATT
1 AAT-AAAAAATAAAAA-T
1354789 AATAAAAA
1 AATAAAAA
1354797 TCAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 17 0.71
18 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAAAATAAAAAT
Found at i:1354803 original size:11 final size:10
Alignment explanation
Indices: 1354721--1354807 Score: 58
Period size: 11 Copynumber: 8.5 Consensus size: 10
1354711 AATAAAACAA
1354721 AAAAATAAA-
1 AAAAATAAAT
*
1354730 AAAGAAT-CAT
1 AAA-AATAAAT
1354740 AAAAATTAAATT
1 AAAAA-TAAA-T
1354752 AAAAATAAA-
1 AAAAATAAAT
1354761 AAATAA-AAAT
1 AAA-AATAAAT
1354771 AATCAAA-AAAT
1 AA--AAATAAAT
*
1354782 AAAAATTAAT
1 AAAAATAAAT
1354792 AAAAATCAAAT
1 AAAAAT-AAAT
1354803 AAAAA
1 AAAAA
1354808 AATCATGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
9 15 0.24
10 20 0.32
11 21 0.33
12 7 0.11
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:1360728 original size:15 final size:15
Alignment explanation
Indices: 1360693--1360736 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1360683 GAAAACGTGT
1360693 AGAAAAAAAAGAAAA
1 AGAAAAAAAAGAAAA
* **
1360708 ATAAAAAAAAGAAGG
1 AGAAAAAAAAGAAAA
*
1360723 AGAAAAAAATGAAA
1 AGAAAAAAAAGAAA
1360737 GAAAATGAGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (15 bp):
AGAAAAAAAAGAAAA
Found at i:1363558 original size:31 final size:31
Alignment explanation
Indices: 1363523--1363619 Score: 142
Period size: 31 Copynumber: 3.1 Consensus size: 31
1363513 TTGTATTTGG
1363523 TCAAATCTGATCCCTTCTTAACTGTATTCAA
1 TCAAATCTGATCCCTTCTTAACTGTATTCAA
* *
1363554 TCAAATTTTG-TCCCTTCTTAATTGTATTCAA
1 TCAAA-TCTGATCCCTTCTTAACTGTATTCAA
* *
1363585 TCAAATCTTATCCCTTCTTAACTGTATTCAG
1 TCAAATCTGATCCCTTCTTAACTGTATTCAA
1363616 TCAA
1 TCAA
1363620 GACTTTCCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.03
31 53 0.91
32 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (31 bp):
TCAAATCTGATCCCTTCTTAACTGTATTCAA
Found at i:1363719 original size:93 final size:93
Alignment explanation
Indices: 1363609--1363884 Score: 308
Period size: 93 Copynumber: 2.9 Consensus size: 93
1363599 TTCTTAACTG
* *
1363609 TATTCAGTCAAGACTTTCCTTATTCAGTTGTACTCGGTCGAATAAAATTTTCTCCTACTTAATTA
1 TATTCGGTCAAGACTTTCCTTATTCAGTTGTACTCGGTCGAATAGAATTTTCTCCTACTTAATTA
1363674 TATTCGGTTGAGCCTTTTTATTTGACTA
66 TATTCGGTTGAGCCTTTTTATTTGACTA
* * *** * *
1363702 TATTCGGTCAAGACTTTCCTTATTCAACTT-TACTCAGTCGAATAGAATCCACAT-TTGCTTAAT
1 TATTCGGTCAAGACTTTCCTTATTC-AGTTGTACTCGGTCGAATAGAATTTTC-TCCTACTTAAT
* *
1363765 TGTATTCGGTTGAGCCTTTTCCTATTTGACTG
64 TATATTCGGTTGAGCCTTTT--TATTTGACTA
* * * *
1363797 TATTCGGTCAAGA-TCTTCCTTATTCAGCTGTACTCGATCGACTAGAATTTTCTCC-AGCTTAAC
1 TATTCGGTCAAGACT-TTCCTTATTCAGTTGTACTCGGTCGAATAGAATTTTCTCCTA-CTTAAT
* * *
1363860 TACATTTGGTTAAGCCTTTTTATTT
64 TATATTCGGTTGAGCCTTTTTATTT
1363885 AATTGTACTC
Statistics
Matches: 149, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
93 72 0.48
94 8 0.05
95 69 0.46
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (93 bp):
TATTCGGTCAAGACTTTCCTTATTCAGTTGTACTCGGTCGAATAGAATTTTCTCCTACTTAATTA
TATTCGGTTGAGCCTTTTTATTTGACTA
Found at i:1364087 original size:218 final size:218
Alignment explanation
Indices: 1363694--1364097 Score: 555
Period size: 218 Copynumber: 1.9 Consensus size: 218
1363684 AGCCTTTTTA
* * *
1363694 TTTGACTATATTCGGTCAAGACTTTCCTTATTCAACTTTACTCAGTCGAATAGAATCCACATTTG
1 TTTGACTATATTCGGTCAAGACCTTCCTTATTCAACTGTACTCAGTCAAATAGAATCCACATTTG
* * * *
1363759 CTTAATTGTATTCGGTTGAGCCTTTTCCTATTTGACTGTATTCGGTCAAGATCTTCCTTATTCAG
66 CTTAACTATATTCGGTTAAGCCTTTTCCTATTTGACTGTATTCAGTCAAGATCTTCCTTATTCAG
* *
1363824 CTGTACTCGATCGACTAGAATTTTCTCCAGCTTAACTACATTTGGTT-AAGCCTTTTTATTTAAT
131 CTGTACTCGATCGACTACAATTTCCTCCAGCTTAACTACATTTGGTTGAA-CCTTTTTATTTAAT
1363888 TGTACTCAGTCAAATCTTACTTCT
195 TGTACTCAGTCAAATCTTACTTCT
* * * *
1363912 TTTGACTATATTCGGTCAAGACCTTCCTTATTCGACTGTACTTTA-TTAAATAGAATCCACCTTT
1 TTTGACTATATTCGGTCAAGACCTTCCTTATTCAACTGTAC-TCAGTCAAATAGAATCCACATTT
*
1363976 GCTTAACTATATTCGGTTAAGCCTTTTCCTATTTGGCTGTATTCAGTCAAGATCTTCCTTATTC-
65 GCTTAACTATATTCGGTTAAGCCTTTTCCTATTTGACTGTATTCAGTCAAGATCTTCCTTATTCA
* * * * * **
1364040 GATTGTACTTGATCGATTACAATTTCCTCTTA-CTTAATTGTATTTGGTTGAACCTTTT
130 G-CTGTACTCGATCGACTACAATTTCCTC-CAGCTTAACTACATTTGGTTGAACCTTTT
1364098 CCTATTTACT
Statistics
Matches: 161, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
217 1 0.01
218 155 0.96
219 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.43
Consensus pattern (218 bp):
TTTGACTATATTCGGTCAAGACCTTCCTTATTCAACTGTACTCAGTCAAATAGAATCCACATTTG
CTTAACTATATTCGGTTAAGCCTTTTCCTATTTGACTGTATTCAGTCAAGATCTTCCTTATTCAG
CTGTACTCGATCGACTACAATTTCCTCCAGCTTAACTACATTTGGTTGAACCTTTTTATTTAATT
GTACTCAGTCAAATCTTACTTCT
Found at i:1364096 original size:95 final size:95
Alignment explanation
Indices: 1363997--1364193 Score: 234
Period size: 95 Copynumber: 2.1 Consensus size: 95
1363987 TTCGGTTAAG
* * * * * *
1363997 CCTTTTCCTATTTGGC-TGTATTCAGTCAAGATCTTCCTTATTCGATTGTACTTGATCGATTACA
1 CCTTTTCCTATTT-ACTTGTATTCAGTCAAGACCTTCCTTATTCGATTATACTCGATCGAATAAA
* **
1364061 ATTTCCTCTTACTTAATTGTATTTGGTTGAA
65 ATTTCCTCCTACTTAATTGTATTCAGTTGAA
* ** * * *
1364092 CCTTTTCCTATTTACTTGTTTTTGGTCGAGACCTTCCTTATTCGGTTATACTCGGTCGAATAAAA
1 CCTTTTCCTATTTACTTGTATTCAGTCAAGACCTTCCTTATTCGATTATACTCGATCGAATAAAA
*
1364157 TTTCCTCCTACTTAATTGTATTCAGTTGAG
66 TTTCCTCCTACTTAATTGTATTCAGTTGAA
1364187 CCTTTTC
1 CCTTTTC
1364194 ATTTAACTGT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
94 1 0.01
95 84 0.99
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.46
Consensus pattern (95 bp):
CCTTTTCCTATTTACTTGTATTCAGTCAAGACCTTCCTTATTCGATTATACTCGATCGAATAAAA
TTTCCTCCTACTTAATTGTATTCAGTTGAA
Found at i:1364191 original size:313 final size:314
Alignment explanation
Indices: 1363759--1364346 Score: 718
Period size: 313 Copynumber: 1.9 Consensus size: 314
1363749 TCCACATTTG
* *
1363759 CTTAATTGTATTCGGTTGAGCCTTTTCCTATTTGACTGTATTCGGTCAAGATCTTCCTTATTCAG
1 CTTAATTGTATTCGGTTGAACCTTTTCCTATTTGACTGTATTCGGTCAAGACCTTCCTTATTCAG
* * * * ** * *
1363824 CTGTACTCGATCGACTAGAATTTTCTCCAGCTTAACTACATTTGGTTAAGCCTTTTTATTTAATT
66 CTATACTCGATCGAATAAAATTTCCTCCAGCTTAACTACATTCAGTTAAGCCTTTTCATTTAACT
* *
1363889 GTACTCAGTCAAATCTTA-CTTCTTTTGA-CTATATTCGGTCAAGACCTTCCTTATTCGACTGTA
131 GTACTCAGTCAAATCTTACCTT-TTTTGACCTATATTCAGTCAAGACCTTCCTTATTCGACTGCA
** * * * *
1363952 CTTTATTAAATAGAA-TCCACCTTTGCTTAACTATATTCGGTTAAGCCTTTTCCTATTTGGCTGT
195 CTCGATCAAATAGAATTCC-CCTTTACTCAACTATATTCGGTTAAGCCTTTTCCTATTTGACTGT
1364016 ATTCAGTCAAGATCTTCCTTATTCGATTGTACTTGATCGATTACAATTTCCTCTTA
259 ATTCAGTCAAGATCTTCCTTATTCGATTGTACTTGATCGATTACAATTTCCTCTTA
* * * * *
1364072 CTTAATTGTATTTGGTTGAACCTTTTCCTATTT-ACTTGTTTTTGGTCGAGACCTTCCTTATTCG
1 CTTAATTGTATTCGGTTGAACCTTTTCCTATTTGAC-TGTATTCGGTCAAGACCTTCCTTATTCA
* * * ** *
1364136 GTTATACTCGGTCGAATAAAATTTCCTCCTA-CTTAATTGTATTCAGTTGAGCCTTTTCATTTAA
65 GCTATACTCGATCGAATAAAATTTCCTCC-AGCTTAACTACATTCAGTTAAGCCTTTTCATTTAA
* * * * **
1364200 CTGTACTCGGTCAAATCTTACCTTTTTTTACCTGTATTCAGTCAAGACCTTCCTTATTTGGTTGC
129 CTGTACTCAGTCAAATCTTACCTTTTTTGACCTATATTCAGTCAAGACCTTCCTTATTCGACTGC
* * * * * * *
1364265 ACTCGATCGAATAGAATTTCCTTTTACTCAACTGTATTTGGTTGAGCCTTTTCTTATTTGACTGT
194 ACTCGATCAAATAGAATTCCCCTTTACTCAACTATATTCGGTTAAGCCTTTTCCTATTTGACTGT
*
1364330 ATTCGGTCAAGATCTTC
259 ATTCAGTCAAGATCTTC
1364347 TTTAGTTGGC
Statistics
Matches: 227, Mismatches: 43, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
312 2 0.01
313 126 0.56
314 97 0.43
315 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.44
Consensus pattern (314 bp):
CTTAATTGTATTCGGTTGAACCTTTTCCTATTTGACTGTATTCGGTCAAGACCTTCCTTATTCAG
CTATACTCGATCGAATAAAATTTCCTCCAGCTTAACTACATTCAGTTAAGCCTTTTCATTTAACT
GTACTCAGTCAAATCTTACCTTTTTTGACCTATATTCAGTCAAGACCTTCCTTATTCGACTGCAC
TCGATCAAATAGAATTCCCCTTTACTCAACTATATTCGGTTAAGCCTTTTCCTATTTGACTGTAT
TCAGTCAAGATCTTCCTTATTCGATTGTACTTGATCGATTACAATTTCCTCTTA
Found at i:1364550 original size:120 final size:120
Alignment explanation
Indices: 1364322--1364552 Score: 268
Period size: 120 Copynumber: 1.9 Consensus size: 120
1364312 CTTTTCTTAT
* * * *
1364322 TTGACTGTATTCGGTCAAGATCTTCTTTAGTTGGCTATACTCGATTAAATCCACCCTCGCTTAAT
1 TTGACTATATTCGGTCAAGATCTTCTCTAGTTGACTATACTCGATCAAATCCACCCTCGCTTAAT
** * *
1364387 TGTATTTGGTTAAACCTTTCCCTATTTGACTGTACTCGATCAAATCATACCTGTC
66 TGTATTCAGTTAAACCCTTCCCTATTTGACTATACTCGATCAAATCATACCTGTC
* * *** *
1364442 TTGACTATATTCGGTCAAGATCTT-TCTCGCTTGACTATACTCGGTCAAATCTTTCCTTGCTTAA
1 TTGACTATATTCGGTCAAGATCTTCTCTAG-TTGACTATACTCGATCAAATCCACCCTCGCTTAA
* * * *
1364506 TTGTATTCAGTTAAGCCCTT-CCTCATTTGATTATACTTGGTCAAATC
65 TTGTATTCAGTTAAACCCTTCCCT-ATTTGACTATACTCGATCAAATC
1364553 TACTTCCTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
119 6 0.07
120 85 0.93
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (120 bp):
TTGACTATATTCGGTCAAGATCTTCTCTAGTTGACTATACTCGATCAAATCCACCCTCGCTTAAT
TGTATTCAGTTAAACCCTTCCCTATTTGACTATACTCGATCAAATCATACCTGTC
Found at i:1364719 original size:47 final size:47
Alignment explanation
Indices: 1364609--1364742 Score: 144
Period size: 47 Copynumber: 2.9 Consensus size: 47
1364599 TGTAACCCTT
* * * *
1364609 GTTTGACTATATTGGCATTAGGACCTAGTCAAACTCTTTTTCACACTT
1 GTTTGACTATATTGGCATTAGGACTTGGTCAAACT-TCTTTCACACTC
* ** * *
1364657 ATTTGGTTGTGTTGGCATTAGGACTTGGTCAAACTTCTTTCACACTC
1 GTTTGACTATATTGGCATTAGGACTTGGTCAAACTTCTTTCACACTC
* * *
1364704 GTTTAACTATATTGGCATTAAGAATTGGTCAAAC-TCTTT
1 GTTTGACTATATTGGCATTAGGACTTGGTCAAACTTCTTT
1364743 TTCCTTAAGT
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
46 5 0.07
47 36 0.52
48 28 0.41
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (47 bp):
GTTTGACTATATTGGCATTAGGACTTGGTCAAACTTCTTTCACACTC
Found at i:1364897 original size:43 final size:42
Alignment explanation
Indices: 1364850--1365158 Score: 108
Period size: 43 Copynumber: 7.0 Consensus size: 42
1364840 CTGTTTGTCG
* * *
1364850 GCCTTGACCCTAGAGACTTTCTTAT-CCTTTAAGTCTGCTTGTT
1 GCCTTGACCCTGGAGACTTT-TTATGCC-TTAAGTCTGCCTATT
* * *
1364893 GCCTTTGACCTTGGAAACATTTTTATGCCTTAAGTTTGCCTATT
1 GCC-TTGACCCTGGAGAC-TTTTTATGCCTTAAGTCTGCCTATT
* * *
1364937 GCTTTGACCCTGGAGACTTCATTA-CCCTT-AGTCTGCCTGTCGACTTT
1 GCCTTGACCCTGGAGACTT-TTTATGCCTTAAGTCTGCC--T--A--TT
* * *
1364984 GAGCTTGGAGACCCTGGAGACTTTATTA-CCCTTAAGTCTGCCTATCG
1 G-CCTT---GACCCTGGAGACTTT-TTATGCCTTAAGTCTGCCTAT-T
* * * * * * *
1365031 GCTTTAACTCTGGAGACTTCTT-GGCCCTTAAATCTGCCTATCG
1 GCCTTGACCCTGGAGACTTTTTATG-CCTTAAGTCTGCCTAT-T
* * * * * *
1365074 GCTTTGACCTTGGAAACTTTCTTATCCCTTAAGTCCGCCTATCA
1 GCCTTGACCCTGGAGACTTT-TTATGCCTTAAGTCTGCCTAT-T
* ** * *
1365118 GCTTTGACCCTAAAGACTTCATTA-CCCTTAAGTCTGCCTAT
1 GCCTTGACCCTGGAGACTT-TTTATGCCTTAAGTCTGCCTAT
1365159 CAACTTTGAC
Statistics
Matches: 205, Mismatches: 39, Indels: 44
0.71 0.14 0.15
Matches are distributed among these distances:
41 7 0.03
42 8 0.04
43 79 0.39
44 64 0.31
45 6 0.03
46 3 0.01
47 4 0.02
48 3 0.01
50 1 0.00
51 22 0.11
52 8 0.04
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (42 bp):
GCCTTGACCCTGGAGACTTTTTATGCCTTAAGTCTGCCTATT
Found at i:1365047 original size:52 final size:51
Alignment explanation
Indices: 1364942--1365047 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
1364932 CTATTGCTTT
* *
1364942 GACCCTGGAGACTTCATTACCCTTAGTCTGCCTGTCGACTTTGAGCTTGGA
1 GACCCTGGAGACTTCATTACCCTTAGTCTGCCTATCGACTTTGAACTTGGA
* *
1364993 GACCCTGGAGACTTTATTACCCTTAAGTCTGCCTATCGGCTTT-AACTCTGGA
1 GACCCTGGAGACTTCATTACCCTT-AGTCTGCCTATCGACTTTGAACT-TGGA
1365045 GAC
1 GAC
1365048 TTCTTGGCCC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
51 26 0.53
52 23 0.47
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (51 bp):
GACCCTGGAGACTTCATTACCCTTAGTCTGCCTATCGACTTTGAACTTGGA
Found at i:1365159 original size:43 final size:43
Alignment explanation
Indices: 1364993--1365481 Score: 430
Period size: 43 Copynumber: 11.3 Consensus size: 43
1364983 TGAGCTTGGA
* *
1364993 GACCCTGGAGACTTTATTACCCTTAAGTCTGCCTATCGGCTTT
1 GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
* * * * *
1365036 AACTCTGGAGACTTC-TTGGCCCTTAAATCTGCCTATCGGCTTT
1 GACCCTAGAGACTTCATT-ACCCTTAAGTCTGCCTATCGGCTTT
* * * * *
1365079 GACCTTGGAAACTTTC-TTATCCCTTAAGTCCGCCTATCAGCTTT
1 GACCCTAGAGAC-TTCATTA-CCCTTAAGTCTGCCTATCGGCTTT
* **
1365123 GACCCTAAAGACTTCATTACCCTTAAGTCTGCCTATCAACTTT
1 GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
* * *
1365166 GACCCTAGAGACTTCATTACCCTTAAGACTGTCTATCGACTTT
1 GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
* * * ** * *
1365209 GACCTTAGAGACTTCCTTACCTTTAAGTCTTTCTGTCGGTTTT
1 GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
* * * * * *
1365252 GACCCTAAAGGCTTCACTACCCTTAAGTCTGTCTGTCGGCCTT
1 GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
* * * * *
1365295 GACCTTGGAGACTTCCTTA-TCTTAAAGTCTGCCTATTGGCTTT
1 GACCCTAGAGACTTCATTACCCTT-AAGTCTGCCTATCGGCTTT
* * * *
1365338 GACCTTGGAGACTTTC-TTACCCTTAAGTCTGCATGTCGGCTTT
1 GACCCTAGAGAC-TTCATTACCCTTAAGTCTGCCTATCGGCTTT
* *
1365381 GACTCTAGAGACTTCATTACCCTTAAGTCTGCCTGTCGGCTTT
1 GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
* * ** * * *
1365424 GACTCTGGAGACTTTC-TTACATTTAAGTCTGCTTTTCAGCTTT
1 GACCCTAGAGAC-TTCATTACCCTTAAGTCTGCCTATCGGCTTT
* *
1365467 GACCTTAGAGGCTTC
1 GACCCTAGAGACTTC
1365482 CTTAATCCAT
Statistics
Matches: 368, Mismatches: 69, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
42 11 0.03
43 311 0.85
44 46 0.12
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (43 bp):
GACCCTAGAGACTTCATTACCCTTAAGTCTGCCTATCGGCTTT
Found at i:1365297 original size:129 final size:127
Alignment explanation
Indices: 1365001--1365485 Score: 481
Period size: 129 Copynumber: 3.8 Consensus size: 127
1364991 GAGACCCTGG
* * * *
1365001 AGACTTTATTACCCTTAAGTCTGCCTATCGGCTTTAACTCTGGAGACTTCTTGGCCCTTAA-ATC
1 AGACTTCATTACCCTTAAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCTT-ACCCTTAAGA-C
* * * * * * *
1365065 TGCCTATCGGCTTTGACCTTGGAAACTTTCTTATCCCTTAAGTCCGCCTATCAGCTTTGACCCTA
64 TGCCTATCGACTTTGACCTTAGAGACTTCCTTA-CCCTTAAGT-CTCCTGTCGGCTTTGACCCTA
1365130 A
127 A
** *
1365131 AGACTTCATTACCCTTAAGTCTGCCTATCAACTTTGACCCTAGAGACTTCATTACCCTTAAGACT
1 AGACTTCATTACCCTTAAGTCTGCCTATCGGCTTTGACCCTGGAGACTTC-TTACCCTTAAGACT
* * * *
1365196 GTCTATCGACTTTGACCTTAGAGACTTCCTTACCTTTAAGTCTTTCTGTCGGTTTTGACCCTAA
65 GCCTATCGACTTTGACCTTAGAGACTTCCTTACCCTTAAGTC-TCCTGTCGGCTTTGACCCTAA
* * * * * * * *
1365260 AGGCTTCACTACCCTTAAGTCTGTCTGTCGGCCTTGACCTTGGAGACTTCCTTA-TCTTAAAGTC
1 AGACTTCATTACCCTTAAGTCTGCCTATCGGCTTTGACCCTGGAGACTT-CTTACCCTT-AAGAC
* * * * * * *
1365324 TGCCTATTGGCTTTGACCTTGGAGACTTTCTTACCCTTAAGTCTGCATGTCGGCTTTGACTCTAG
64 TGCCTATCGACTTTGACCTTAGAGACTTCCTTACCCTTAAGTCT-CCTGTCGGCTTTGACCCTAA
* * ** *
1365389 AGACTTCATTACCCTTAAGTCTGCCTGTCGGCTTTGACTCTGGAGACTTTCTTACATTTAAGTCT
1 AGACTTCATTACCCTTAAGTCTGCCTATCGGCTTTGACCCTGGAGAC-TTCTTACCCTTAAGACT
* * *
1365454 GCTTTTC-AGCTTTGACCTTAGAGGCTTCCTTA
65 GCCTATCGA-CTTTGACCTTAGAGACTTCCTTA
1365486 ATCCATCGTT
Statistics
Matches: 291, Mismatches: 55, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
128 5 0.02
129 198 0.68
130 85 0.29
131 3 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (127 bp):
AGACTTCATTACCCTTAAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCTTACCCTTAAGACTG
CCTATCGACTTTGACCTTAGAGACTTCCTTACCCTTAAGTCTCCTGTCGGCTTTGACCCTAA
Found at i:1365767 original size:43 final size:43
Alignment explanation
Indices: 1365587--1365775 Score: 177
Period size: 42 Copynumber: 4.4 Consensus size: 43
1365577 TTGCTAGTTG
* ** *
1365587 GCTTAGACCCAAGAGACTT-TTTCATCTTTCGTCTGCCCATCA
1 GCTTAGACCCAAGAGACTTCCTTCATCCATCGTTTGCCCATCA
* * ***
1365629 ACTCAGACTTGAGAGACTTCCTTCATCCAT-GTTTGCCCATCA
1 GCTTAGACCCAAGAGACTTCCTTCATCCATCGTTTGCCCATCA
* * * *
1365671 GCTTAGACCTAAGAGACTTGCTTCATCCATCATTTGCCCATCG
1 GCTTAGACCCAAGAGACTTCCTTCATCCATCGTTTGCCCATCA
* * * *
1365714 GCTCAAACCCAAGAGAC-TCCTTCATCCATCGTCTACCCAATCA
1 GCTTAGACCCAAGAGACTTCCTTCATCCATCGTTTGCCC-ATCA
* *
1365757 GTTTAGACCCAAGAAACTT
1 GCTTAGACCCAAGAGACTT
1365776 TTTCATCTTT
Statistics
Matches: 115, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
42 67 0.58
43 47 0.41
44 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (43 bp):
GCTTAGACCCAAGAGACTTCCTTCATCCATCGTTTGCCCATCA
Found at i:1365792 original size:85 final size:84
Alignment explanation
Indices: 1365587--1365793 Score: 227
Period size: 85 Copynumber: 2.4 Consensus size: 84
1365577 TTGCTAGTTG
* * * ***
1365587 GCTTAGACCCAAGAGACTTTTTCATCTTTCGTCTGCCCATCAACTCAGACTTGAGAGACTTCCTT
1 GCTTAGACCCAAGAGACTTTTTCATCTTTCATTTGCCCATCAACTCAAACCCAAGAGACTTCCTT
* *
1365652 CATCCATGTTTGCCCATCA
66 CATCCATGTCTACCCATCA
* * ** **
1365671 GCTTAGACCTAAGAGACTTGCTTCATCCATCATTTGCCCATCGGCTCAAACCCAAGAGAC-TCCT
1 GCTTAGACCCAAGAGACTT-TTTCATCTTTCATTTGCCCATCAACTCAAACCCAAGAGACTTCCT
1365735 TCATCCATCGTCTACCCAATCA
65 TCATCCAT-GTCTACCC-ATCA
* * *
1365757 GTTTAGACCCAAGAAACTTTTTCATCTTTCCTTTGCC
1 GCTTAGACCCAAGAGACTTTTTCATCTTTCATTTGCC
1365794 TGTTGCCTTA
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
84 30 0.30
85 49 0.49
86 20 0.20
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (84 bp):
GCTTAGACCCAAGAGACTTTTTCATCTTTCATTTGCCCATCAACTCAAACCCAAGAGACTTCCTT
CATCCATGTCTACCCATCA
Found at i:1365873 original size:42 final size:42
Alignment explanation
Indices: 1365827--1365934 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 42
1365817 CCTTCATCCA
**
1365827 TCATCTGCCTATCGGCTTACACTTGGGAGACTTTTTT-ATCTT
1 TCATCTGCCTATCGGCTTACACCCGGGAGA-TTTTTTCATCTT
* * * *
1365869 TCATCT-ACTCGTCAGCTTAGACCCGGGAGATTTTTTCATCTT
1 TCATCTGCCT-ATCGGCTTACACCCGGGAGATTTTTTCATCTT
* * *
1365911 TTATCTGCCTATTGGCTTAGACCC
1 TCATCTGCCTATCGGCTTACACCC
1365935 AAAAGACTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
41 8 0.15
42 42 0.81
43 2 0.04
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (42 bp):
TCATCTGCCTATCGGCTTACACCCGGGAGATTTTTTCATCTT
Found at i:1366158 original size:42 final size:42
Alignment explanation
Indices: 1366061--1366163 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
1366051 TTAAACATCG
* *
1366061 GGAGACTTTCTTCATCCATCATCTACCCATCGGCTTAGATCT
1 GGAGACTTCCTTCATCCATCATCTACCCATCGGCTCAGATCT
* * * *
1366103 GGAGACTTGCTTCATCCATCATCTATCTATTGGCTCAGA-CTT
1 GGAGACTTCCTTCATCCATCATCTACCCATCGGCTCAGATC-T
1366145 AGGAGAC-TCCTTCATCCAT
1 -GGAGACTTCCTTCATCCAT
1366164 TGTCTGCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 46 0.87
43 6 0.11
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (42 bp):
GGAGACTTCCTTCATCCATCATCTACCCATCGGCTCAGATCT
Found at i:1366758 original size:85 final size:85
Alignment explanation
Indices: 1366546--1366889 Score: 349
Period size: 85 Copynumber: 4.0 Consensus size: 85
1366536 CTTTTCATCT
* * * * *
1366546 TTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGGTAAACGTT-TTACCTCTTGGTGACTTG
1 TTTCTTACCCTTTGTTTACCTATCGGCTATGTCCTCAGTAAAC-TTCTTATC-CTTGGTGACCTG
* * *
1366610 TCGGCTTTGTCTTTGGTCAGCC
64 TCAGCTTTGTCCTTGGTCAACC
* *
1366632 TTTCTTACCCTTTGTATACTTGAT-GGCTATGTCC-CTAGTAAACTTCTTATCCTTGGTGACCTG
1 TTTCTTACCCTTTGTTTACCT-ATCGGCTATGTCCTC-AGTAAACTTCTTATCCTTGGTGACCTG
*
1366695 TCAGCTTTGTCCTTGGTCAACT
64 TCAGCTTTGTCCTTGGTCAACC
* * * *
1366717 TTTCTAAACCCTTTGTTTACCTATTGGCT-TTTCCTCGGTAAACTTCTTATCCTTGGTGACCTGT
1 TTTCT-TACCCTTTGTTTACCTATCGGCTATGTCCTCAGTAAACTTCTTATCCTTGGTGACCTGT
** *
1366781 CAGCTTTGTCCCCGGTCAGCC
65 CAGCTTTGTCCTTGGTCAACC
** * * * *
1366802 TTTCTTACTTTTTGTTTACCTGTCAGCTTTGTCCTCAGTAAACTTCTTACTCTTTGGTGA-CTAG
1 TTTCTTACCCTTTGTTTACCTATCGGCTATGTCCTCAGTAAACTTCTTA-TCCTTGGTGACCT-G
*
1366866 TCAGCTTAGATCC-TGGTCAACC
64 TCAGCTTTG-TCCTTGGTCAACC
1366888 TT
1 TT
1366890 CATCCTATTG
Statistics
Matches: 217, Mismatches: 31, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
84 17 0.08
85 112 0.52
86 84 0.39
87 4 0.02
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (85 bp):
TTTCTTACCCTTTGTTTACCTATCGGCTATGTCCTCAGTAAACTTCTTATCCTTGGTGACCTGTC
AGCTTTGTCCTTGGTCAACC
Found at i:1366844 original size:170 final size:172
Alignment explanation
Indices: 1366544--1366886 Score: 405
Period size: 170 Copynumber: 2.0 Consensus size: 172
1366534 GACTTTTCAT
* * *
1366544 CTTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGGTAAACGTTTTACCTCTTGGTGACTT
1 CTTTTCTAACCCTTTGTTTACCTATCGGCTATGTCCCCGGTAAACGTTTTACCTCTTGGTGACCT
* *** * *
1366609 GTCGGCTTTGTCTTTGGTCAGCCTTTCTTACCCTTTGTATACTTGATGGCTATGTCCCTAGTAAA
66 GTCAGCTTTGTCCCCGGTCAGCCTTTCTTACCCTTTGTATACCTGATAGCTATGTCCCTAGTAAA
*
1366674 CTTCTTA-TCCTTGGTGACCT-GTCAGCTTTG-TCCTTGGTCAA
131 CTTCTTACTCCTTGGTGA-CTAGTCAGCTTAGATCC-TGGTCAA
* * * *
1366715 CTTTTCTAAACCCTTTGTTTACCTATTGGCT-TTTCCTCGGTAAAC-TTCTTATC-CTTGGTGAC
1 CTTTTCT-AACCCTTTGTTTACCTATCGGCTATGTCCCCGGTAAACGTT-TTACCTCTTGGTGAC
** * *
1366777 CTGTCAGCTTTGTCCCCGGTCAGCCTTTCTTACTTTTTGTTTACCTG-TCAGCTTTGT-CCTCAG
64 CTGTCAGCTTTGTCCCCGGTCAGCCTTTCTTACCCTTTGTATACCTGAT-AGCTATGTCCCT-AG
*
1366840 TAAACTTCTTACTCTTTGGTGACTAGTCAGCTTAGATCCTGGTCAA
127 TAAACTTCTTACTCCTTGGTGACTAGTCAGCTTAGATCCTGGTCAA
1366886 C
1 C
1366887 CTTCATCCTA
Statistics
Matches: 146, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
169 4 0.03
170 70 0.48
171 49 0.34
172 23 0.16
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (172 bp):
CTTTTCTAACCCTTTGTTTACCTATCGGCTATGTCCCCGGTAAACGTTTTACCTCTTGGTGACCT
GTCAGCTTTGTCCCCGGTCAGCCTTTCTTACCCTTTGTATACCTGATAGCTATGTCCCTAGTAAA
CTTCTTACTCCTTGGTGACTAGTCAGCTTAGATCCTGGTCAA
Found at i:1366869 original size:42 final size:42
Alignment explanation
Indices: 1366669--1366872 Score: 164
Period size: 44 Copynumber: 4.8 Consensus size: 42
1366659 TATGTCCCTA
* *
1366669 GTAAACTTCTTA-TCCTTGGTGACCTGTCAGCTTTGTCCTTG
1 GTAAACTTCTTACTCTTTGGTGACCTGTCAGCTTTGTCCTCG
* * * * * * **
1366710 GTCAACTTTTCTAAACCCTTTGTTTACCTATTGGCTTT-TCCTCG
1 GTAAAC--TTCT-TACTCTTTGGTGACCTGTCAGCTTTGTCCTCG
* *
1366754 GTAAACTTCTTA-TCCTTGGTGACCTGTCAGCTTTGTCCCCG
1 GTAAACTTCTTACTCTTTGGTGACCTGTCAGCTTTGTCCTCG
** * * * *
1366795 GTCAGCCTTTCTTACTTTTTGTTTACCTGTCAGCTTTGTCCTCA
1 GT-AAAC-TTCTTACTCTTTGGTGACCTGTCAGCTTTGTCCTCG
1366839 GTAAACTTCTTACTCTTTGGTGA-CTAGTCAGCTT
1 GTAAACTTCTTACTCTTTGGTGACCT-GTCAGCTT
1366873 AGATCCTGGT
Statistics
Matches: 121, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
40 15 0.12
41 15 0.12
42 28 0.23
43 12 0.10
44 36 0.30
45 15 0.12
ACGTcount: A:0.15, C:0.26, G:0.16, T:0.43
Consensus pattern (42 bp):
GTAAACTTCTTACTCTTTGGTGACCTGTCAGCTTTGTCCTCG
Found at i:1367489 original size:7 final size:8
Alignment explanation
Indices: 1367477--1367525 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
1367467 ATAAAAGATC
1367477 AATT-AAA
1 AATTAAAA
1367484 AATTAAAA
1 AATTAAAA
1367492 AATTAAAA
1 AATTAAAA
*
1367500 TAATTGAAA
1 -AATTAAAA
1367509 AA-T-AAA
1 AATTAAAA
1367515 AATTAATAA
1 AATTAA-AA
1367524 AA
1 AA
1367526 ATCAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
6 5 0.14
7 6 0.17
8 14 0.39
9 11 0.31
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (8 bp):
AATTAAAA
Found at i:1367509 original size:17 final size:17
Alignment explanation
Indices: 1367484--1367526 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1367474 ATCAATTAAA
*
1367484 AATTAAAAAATTAAAAT
1 AATTAAAAAATAAAAAT
*
1367501 AATTGAAAAATAAAAATT
1 AATTAAAAAATAAAAA-T
1367519 AA-TAAAAA
1 AATTAAAAA
1367527 TCAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
AATTAAAAAATAAAAAT
Found at i:1371286 original size:20 final size:22
Alignment explanation
Indices: 1371246--1371293 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1371236 TAGCCTTTGA
*
1371246 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
1371268 CCATGCA-TTTTTAAC-ATG-T
1 CCATGCATTTTTTAACTATGTT
1371287 CCA-GCAT
1 CCATGCAT
1371294 CTCACTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:1375819 original size:20 final size:20
Alignment explanation
Indices: 1375794--1376003 Score: 123
Period size: 20 Copynumber: 9.4 Consensus size: 20
1375784 CCAGATTTAC
1375794 CGATACATTGAAAAATGTAT
1 CGATACATTGAAAAATGTAT
1375814 CGATACATCTGGGAAAAAGATAGAATGAAT
1 CGATACAT-T--G-AAAA-AT-G--T--AT
* *
1375844 CGATACATTGAAGATTGTAT
1 CGATACATTGAAAAATGTAT
* * *
1375864 CGATACATTCATACATGTAT
1 CGATACATTGAAAAATGTAT
*
1375884 CGATACATTAAAAAATGTAT
1 CGATACATTGAAAAATGTAT
*
1375904 TGATACATCTGGGTAAAAAAAATAGAATGTAT
1 CGATACAT-T--G-------AA-A-AATGTAT
*
1375936 CGATACATTGAAGAATGTAT
1 CGATACATTGAAAAATGTAT
* * *
1375956 CGATACATTCATACATGTAT
1 CGATACATTGAAAAATGTAT
1375976 CGATACATTGAAAAATGTAT
1 CGATACATTGAAAAATGTAT
1375996 CGATACAT
1 CGATACAT
1376004 CTGGGTAAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
20 97 0.66
21 2 0.01
22 3 0.02
23 1 0.01
24 5 0.03
25 3 0.02
26 4 0.03
27 1 0.01
28 1 0.01
29 2 0.01
30 12 0.08
31 2 0.01
32 14 0.10
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
CGATACATTGAAAAATGTAT
Found at i:1375955 original size:92 final size:92
Alignment explanation
Indices: 1375794--1376034 Score: 407
Period size: 92 Copynumber: 2.7 Consensus size: 92
1375784 CCAGATTTAC
* *
1375794 CGATACATTGAAAAATGTATCGATACATCTGGG--AAAAAGATAGAATGAATCGATACATTGAAG
1 CGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAATAGAATGTATCGATACATTGAAG
*
1375857 ATTGTATCGATACATTCATACATGTAT
66 AATGTATCGATACATTCATACATGTAT
* *
1375884 CGATACATTAAAAAATGTATTGATACATCTGGGTAAAAAAAATAGAATGTATCGATACATTGAAG
1 CGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAATAGAATGTATCGATACATTGAAG
1375949 AATGTATCGATACATTCATACATGTAT
66 AATGTATCGATACATTCATACATGTAT
*
1375976 CGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGAA-AGAATGTATCGATACAT
1 CGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAATAGAATGTATCGATACAT
1376035 CTGGGTAAAA
Statistics
Matches: 141, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
90 31 0.22
91 17 0.12
92 93 0.66
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (92 bp):
CGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAATAGAATGTATCGATACATTGAAG
AATGTATCGATACATTCATACATGTAT
Found at i:1376025 original size:31 final size:30
Alignment explanation
Indices: 1375985--1376045 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 30
1375975 TCGATACATT
1375985 GAAAAATGTATCGATACATCTGGGTAAAAA
1 GAAAAATGTATCGATACATCTGGGTAAAAA
1376015 GAAAGAATGTATCGATACATCTGGGTAAAAA
1 GAAA-AATGTATCGATACATCTGGGTAAAAA
1376046 TGTGACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (30 bp):
GAAAAATGTATCGATACATCTGGGTAAAAA
Found at i:1384912 original size:20 final size:20
Alignment explanation
Indices: 1384886--1384975 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
1384876 CCTAGATGTC
*
1384886 TCGATACATT-TTGCATTGTA
1 TCGATACATTGCT-CATTGTA
*
1384906 ACGATACATTGCTCATTGTA
1 TCGATACATTGCTCATTGTA
*
1384926 TCGATACATTGCTCATTATA
1 TCGATACATTGCTCATTGTA
* *
1384946 TCGATACATT-TTACAATGTA
1 TCGATACATTGCT-CATTGTA
1384966 TCGATACATT
1 TCGATACATT
1384976 CAGGCACTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.02
20 59 0.97
21 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
TCGATACATTGCTCATTGTA
Found at i:1387187 original size:51 final size:51
Alignment explanation
Indices: 1387085--1387196 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
1387075 CATCTTAGGA
* * * *
1387085 ATACTCCAACTCTGATTTTATTTCTAAAGCATCGATTTACAGCAATCGGGG
1 ATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACAGCAATCGGGG
* *
1387136 ATACTCCAACTCCGATTTTATTT-TCAAAACACCAATTTTTCA-CAATTGGGG
1 ATACTCCAACTCCGATTTTATTTCT-AAAACACCAA-TTTACAGCAATCGGGG
*
1387187 ATACTACAAC
1 ATACTCCAAC
1387197 CCCGTTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 46 0.88
52 5 0.10
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (51 bp):
ATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACAGCAATCGGGG
Found at i:1387245 original size:28 final size:29
Alignment explanation
Indices: 1387183--1387256 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
1387173 TTTCACAATT
* *
1387183 GGGGATACTACAACCCCGTTATTTCATCA
1 GGGGATACTCCAACCCCATTATTTCATCA
* *
1387212 -GAGATACTCCAACCCCATTATTTC-TGA
1 GGGGATACTCCAACCCCATTATTTCATCA
1387239 GGGGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
1387257 GCTTCATATC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
GGGGATACTCCAACCCCATTATTTCATCA
Found at i:1387421 original size:51 final size:51
Alignment explanation
Indices: 1387349--1387466 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
1387339 TTATTTCCGA
* * * * *
1387349 GGGGATACTCTAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
* * *
1387400 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1387451 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1387467 TGTTATTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:1387427 original size:110 final size:108
Alignment explanation
Indices: 1387132--1387413 Score: 345
Period size: 110 Copynumber: 2.6 Consensus size: 108
1387122 TACAGCAATC
* * * * * *
1387132 GGGGATACTCCAACTCCGATTTTATTT-TCAAAACACCAATTTTTCACAATTGGGGATACTACAA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAAATATCAATTTTTCACAATCGGGGATACTCCAA
*
1387196 CCCCGTTATTTCATCAGAGATACTCCAACCCCATTATTTCTGA
66 CCCCGTTATTTCATCAGAGATACTCCAACCCCATTATTTCCGA
* * * * * * *
1387239 GGGGATACTCCAACCCC-AGCTTCATATCTAAAAAATATTATTTTTTTCATAATCGGGGGTACTC
1 GGGGATACTCCAACCCCGA-TTTTATTTCT-AAAAATATCA-ATTTTTCACAATCGGGGATACTC
* * * *
1387303 CAACCCCGTTATTTCATCGGAGATACTCCAATCTCGTTATTTCCGA
63 CAACCCCGTTATTTCATCAGAGATACTCCAACCCCATTATTTCCGA
*
1387349 GGGGATACTCTAACCCCGATTTTATTTCT-AAAATATCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAAATATCAATTTTTCACAATCGGGGATACTCCAA
1387413 C
66 C
1387414 TCTGATTTTA
Statistics
Matches: 144, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
106 1 0.01
107 45 0.31
108 9 0.06
109 6 0.04
110 82 0.57
111 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAAATATCAATTTTTCACAATCGGGGATACTCCAA
CCCCGTTATTTCATCAGAGATACTCCAACCCCATTATTTCCGA
Found at i:1387484 original size:79 final size:79
Alignment explanation
Indices: 1387400--1387619 Score: 296
Period size: 79 Copynumber: 2.8 Consensus size: 79
1387390 TTTCACAATC
* * *
1387400 GGGGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
**
1387465 CCTGTTATTTTCGC
66 CCTGTTATTTTCAA
* * * * *
1387479 TGGGATACTCCAACCCCGATTTTATTTTCAAAATACCGATTTTTCATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
* *
1387544 CCTTTTATTTTTAA
66 CCTGTTATTTTCAA
* * *
1387558 GGGGGTACTCCAACCCCGATTTTTATTTCTAGAACACCAATTTTTCATAATCGGGGATACTC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTC
1387620 TAGCCTCGTT
Statistics
Matches: 120, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 84 0.70
80 36 0.30
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
CCTGTTATTTTCAA
Found at i:1397029 original size:209 final size:211
Alignment explanation
Indices: 1396683--1397290 Score: 862
Period size: 209 Copynumber: 2.9 Consensus size: 211
1396673 GAGATAATAA
* * * * *
1396683 CGGGGTTAGAGTGTTCCCTCGGAAGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGG
1 CGGGGTTAGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGG
* * *
1396748 AGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGCATCCTCGATT
65 AGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
1396813 AAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT-CCCGATTAT-GAAAAATCAA
130 AAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAA
* *
1396876 TATTTTGGAAATAAAGT
195 TATTTTAGAAATAAAAT
**
1396893 CGGGGTTAGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
1 CGGGGTTAGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
* * *
1396958 GTGTCCTCGATTGTGAAAAATTGGTATTTTTGAAAATAAAATCGGAGTTGGAGTGTCCCCGATTA
66 GTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
* * * *
1397023 AAGGAAAATTGGCGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGT
131 AAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAAT
* **
1397088 GTTTTAGCGATAAAAT
196 ATTTTAGAAATAAAAT
* **
1397104 CGGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
1 CGGGGTTAGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
* * *
1397169 GTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGAT
66 GTATCCTCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
* * * * * *
1397234 TATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
129 TAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGA
1397291 GAATTGAGAA
Statistics
Matches: 355, Mismatches: 39, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
209 114 0.32
210 53 0.15
211 95 0.27
212 56 0.16
213 37 0.10
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (211 bp):
CGGGGTTAGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
GTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
AAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAAT
ATTTTAGAAATAAAAT
Found at i:1397120 original size:52 final size:52
Alignment explanation
Indices: 1396742--1397290 Score: 251
Period size: 52 Copynumber: 10.5 Consensus size: 52
1396732 GAAATAACGA
* * *
1396742 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTTGAAAATAAAATCGG
* * * ** *
1396794 TGTTGGAGCATCCTCGATTAAAGG-AAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *** * * *
1396846 GGTTGGAGTAT-CCCGATTAT-GAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* * * * ** ** *
1396896 GGTTAGAGTATCCCC--TCG-GAAATAACAGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTGTGGAA-AA-A---TTGGTGT-T--TTGAAAATAAAATCGG
* * *
1396951 GGTTGGAGTGTCCTCGATTGT-GAAAAATTGGTATTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTTGAAAATAAAATCGG
* * ** * *
1397003 AGTTGGAGTGTCCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* **
1397055 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGA-AAATAAAATCGG
* * * * *
1397107 GGTTGGAGTATCCCC-----T-CAAAAATAATGG-GGTTGGAGTATCCCCGATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAAT--TGGTGTTTTGA--A-----AAT-A-AAATCGG
*
1397162 GGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAA-AAATTGGTG--TTTTGAAAATAAAATCGG
* * * * *
1397216 AGTTAGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *
1397267 AGTTGGAATATCCCCGATTGTGGA
1 GGTTGGAGTATCCCCGATTGTGGA
1397291 GAATTGAGAA
Statistics
Matches: 367, Mismatches: 84, Indels: 92
0.68 0.15 0.17
Matches are distributed among these distances:
46 6 0.02
47 4 0.01
48 3 0.01
49 4 0.01
50 38 0.10
51 51 0.14
52 137 0.37
53 28 0.08
54 30 0.08
55 39 0.11
56 5 0.01
57 7 0.02
59 3 0.01
60 5 0.01
61 4 0.01
62 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:1397171 original size:27 final size:27
Alignment explanation
Indices: 1397095--1397179 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
1397085 AGTGTTTTAG
*
1397095 CGATAAA-ATCGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
* * *
1397121 CTCAAAAATAATGGGGTTGGAGTATCCC
1 C-GATAAATAACGGGGTTGGAGTATCCC
* *
1397149 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
1397176 CGAT
1 CGAT
1397180 TGTGAAGAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:1397181 original size:107 final size:106
Alignment explanation
Indices: 1396708--1397230 Score: 344
Period size: 104 Copynumber: 4.9 Consensus size: 106
1396698 CCCTCGGAAG
* * * *
1396708 TAATGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGG
1 TAATGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG
* * * * *
1396773 TATTTTTGGAAATAAAATCGGTGTTGGAGCAT--CCTC--GAT
65 TATTTTT-GAAATAAAATCGGAGTTAGAGTATCCCCTCAAAAA
* ** * ** ** * *
1396812 TAAAGGAAAATTGGTGT-T--TTGAAAATAAAACCGGGGTTGGAGTAT-CCCGATTATGAAAAAT
1 TAATGG--GGTTGGAGTATCCCCGATGAT-TAA-CGGGGTTGGAGTATCCCCGATTGTGAAAAAT
* * * * * **
1396873 CAATATTTTGGAAATAAAGTCGGGGTTAGAGTATCCCCTCGGAAA
62 TAGTATTTTTGAAATAAAATCGGAGTTAGAGTATCCCCTCAAAAA
** * * *
1396918 TAACAGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTGTCCTCGATTGTGAAAAATTGGT
1 TAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
* * *
1396983 ATTTTTGAAAATAAAATCGGAGTTGGAGTGTCCCCGATTAAAGGAA
66 ATTTTTG-AAATAAAATCGGAGTTAGAGTATCCCC--TCAAA--AA
* ** *
1397029 -AATTGGCGTT----T-T----GAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAAT
1 TAA-TGGGGTTGGAGTATCCCCGATGAT-TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAAT
* * ** * *
1397084 TAGTGTTTTAGCGATAAAATCGGGGTTGGAGTATCCCCTCAAAAA
62 TAGTATTTTTGAAATAAAATCGGAGTTAGAGTATCCCCTCAAAAA
*
1397129 TAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGG
1 TAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAG
*
1397194 TGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
65 T-ATTTTT-GAAATAAAATCGGAGTTAGAGTATCCCC
1397231 GATTATAGAA
Statistics
Matches: 311, Mismatches: 74, Indels: 63
0.69 0.17 0.14
Matches are distributed among these distances:
100 8 0.03
101 2 0.01
102 29 0.09
103 26 0.08
104 74 0.24
105 31 0.10
106 38 0.12
107 59 0.19
108 6 0.02
109 30 0.10
110 2 0.01
111 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (106 bp):
TAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
ATTTTTGAAATAAAATCGGAGTTAGAGTATCCCCTCAAAAA
Found at i:1397263 original size:51 final size:53
Alignment explanation
Indices: 1397167--1397285 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
1397157 AACGGGGTTG
* * *
1397167 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
1397221 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
1397272 GAATATCCCCGATT
1 GAGTATCCCCGATT
1397286 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:1399675 original size:33 final size:33
Alignment explanation
Indices: 1399633--1399699 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1399623 AAAATTTCCA
* ***
1399633 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGACACAAAGAAAAATGTATCGATAC
*
1399666 AATGTATCGACACACAGAAAAATGTATCGATAC
1 AATGTATCGACACAAAGAAAAATGTATCGATAC
1399699 A
1 A
1399700 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (33 bp):
AATGTATCGACACAAAGAAAAATGTATCGATAC
Found at i:1399743 original size:19 final size:18
Alignment explanation
Indices: 1399719--1399786 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1399709 CAGTAGCTAA
1399719 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1399738 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1399753 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1399770 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1399787 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:1399759 original size:13 final size:13
Alignment explanation
Indices: 1399741--1399765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1399731 ACAATACTTA
1399741 TGTATCGATACAT
1 TGTATCGATACAT
1399754 TGTATCGATACA
1 TGTATCGATACA
1399766 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:1399763 original size:32 final size:32
Alignment explanation
Indices: 1399722--1399784 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1399712 TAGCTAATTA
*
1399722 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1399754 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1399785 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:1404302 original size:17 final size:18
Alignment explanation
Indices: 1404280--1404327 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
1404270 CCTTCTTTTT
*
1404280 AAAAAAAACAAAAAAAGA
1 AAAAAAAAGAAAAAAAGA
1404298 AAAAAAAAGAAAAAAAG-
1 AAAAAAAAGAAAAAAAGA
*
1404315 AAAGAAAAGAAAA
1 AAAAAAAAGAAAA
1404328 GAACTTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAGA
Found at i:1404322 original size:9 final size:8
Alignment explanation
Indices: 1404281--1404327 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
1404271 CTTCTTTTTA
*
1404281 AAAAAAAC
1 AAAAAAAG
1404289 AAAAAAAG
1 AAAAAAAG
1404297 AAAAAAAAAG
1 --AAAAAAAG
1404307 AAAAAAAG
1 AAAAAAAG
1404315 AAAGAAAAG
1 AAA-AAAAG
1404324 AAAA
1 AAAA
1404328 GAACTTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
8 19 0.54
9 8 0.23
10 8 0.23
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1406128 original size:59 final size:59
Alignment explanation
Indices: 1405682--1406607 Score: 1139
Period size: 59 Copynumber: 15.9 Consensus size: 59
1405672 GGAGTAAAAA
* * * * *
1405682 GTGCCACCAACTCGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGATTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* * * * * *
1405737 ATGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGATTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * * *
1405792 GTGCCACCAACTTGTGTGGGCTTT----G-AGAGGTGTCCTGCTCTTTGAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* * * ** * * * *
1405847 ATGCCACCAACTTGTGTAGGCTTTGAAAGGTGAAGGCATCCTGCTCTCTGAGGACCGGGAA-
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGA-C-TGAAG
* * * *
1405908 GTGCCACCAACTTATGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTGAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* * * ***
1405963 ATGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCTTACTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAG
* * * *
1406018 GTGCCACAAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* * *
1406078 GTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
*
1406137 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTTTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1406196 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1406255 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1406314 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
* *
1406373 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCGTCCCGCTCTTTGAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
* *
1406433 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
*
1406492 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAG
*
1406552 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
1406608 GAAAGCGGAA
Statistics
Matches: 782, Mismatches: 64, Indels: 46
0.88 0.07 0.05
Matches are distributed among these distances:
53 1 0.00
54 10 0.01
55 189 0.24
56 5 0.01
58 2 0.00
59 373 0.48
60 138 0.18
61 60 0.08
62 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (59 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
Found at i:1420084 original size:28 final size:28
Alignment explanation
Indices: 1420023--1420104 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1420013 TTTTGGAGAT
*
1420023 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
1420051 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
1420079 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
1420105 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:1420176 original size:51 final size:51
Alignment explanation
Indices: 1420087--1420466 Score: 214
Period size: 52 Copynumber: 7.3 Consensus size: 51
1420077 GAAATAACGA
* **
1420087 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
1420139 TGTT-GAGCATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AAGAAAAATTGGTATTTTGGAAATAAAATCGG
* ***
1420190 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAGAAAAATTGGTATTTTGGAAATAAAATCGG
** **** * *
1420241 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTAAGAAA-AA-----TT-G-GTATTTTGGA-AATAAAATCGG
* * **
1420296 GGTTGGAGTGTCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * ** * *
1420348 AGTTGGAGTGTCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AAGAAAAATTGGTATTTTGGAAATAAAATCGG
* ** * * * ** *
1420400 GGTTGGAGTATCCCTGATTGTGGAAAAATTAGTGTTTTAGCGATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AAGAAAAATTGGTATTTTGGAAATAAAATCGG
*
1420452 AGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1420467 TCGGAAATAA
Statistics
Matches: 246, Mismatches: 64, Indels: 36
0.71 0.18 0.10
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
50 5 0.02
51 76 0.31
52 116 0.47
53 9 0.04
54 1 0.00
55 16 0.07
56 7 0.03
57 4 0.02
58 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAAGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:1420301 original size:27 final size:28
Alignment explanation
Indices: 1420238--1420313 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
1420228 GAAATAAAAT
***
1420238 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1420266 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1420293 CGGGGTTGGAGTGTCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1420314 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1420375 original size:210 final size:209
Alignment explanation
Indices: 1420013--1420634 Score: 908
Period size: 211 Copynumber: 3.0 Consensus size: 209
1420003 AAATTTAATG
* * *
1420013 TTTTGGAGATAATAACGGGGTTGGAGTGTTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATG
1 TTTTGGAGATAA-AACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
* * *
1420078 AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTT
65 -ATTAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTT
*
1420143 GAGCATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAT
129 GAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAT
1420208 TAT-GAAAAATCAATA
194 TATGGAAAAATCAATA
*
1420223 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTGGAGATAAAA-CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
*
1420288 ATTAACGGGGTTGGAGTGTCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTG
65 ATTAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTT-
* * *
1420353 GAGTGTCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCTGAT
129 GAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGAT
* * * *
1420418 TGTGGAAAAATTAGTG
194 TATGGAAAAATCAATA
* * *
1420434 TTTTAGCGATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTGGAGATAAAA-CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
* *
1420499 ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGT
65 ATTAACGGGGTTGGAGTATCCTCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGT
* * * * *
1420564 TAGAGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAAT-AAATCGGAGTTGGAATATCCCCG
128 T-GAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCG
*
1420627 ATTGTGGA
192 ATTATGGA
1420635 GAATTGAGAA
Statistics
Matches: 374, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
209 62 0.17
210 121 0.32
211 126 0.34
212 27 0.07
213 38 0.10
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (209 bp):
TTTTGGAGATAAAACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGA
TTAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGA
GTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
TGGAAAAATCAATA
Found at i:1420493 original size:28 final size:27
Alignment explanation
Indices: 1420453--1420523 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1420443 TAAAACCGGA
**
1420453 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
1420481 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
1420508 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1420524 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:1420527 original size:107 final size:106
Alignment explanation
Indices: 1420013--1420575 Score: 424
Period size: 107 Copynumber: 5.3 Consensus size: 106
1420003 AAATTTAATG
* * * *
1420013 TTTTGGAGATAATAA-CGGGGTTGGAGTGTTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTTTGGA-ATAA-AATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
* * * *
1420077 GAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTAT
64 G-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT
* * * * ** * **
1420121 TTTTGGAAATAAAATCGGTGTT-GAGCAT-CCC-C-G-ATTAAAGGAAAATTGGTGT-T--TTGA
1 TTTTGG-AATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGA
** * * * *
1420178 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA-
63 TGAT-TAA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT
*
1420223 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTGG-AATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
* * *
1420288 ATTAACGGGGTTGGAGTGTCCTCGATTGTGAAAAATTGGTAT
65 ATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT
* * * ** * **
1420330 TTTTGGAAATAAAATCGGAGTTGGAGTGT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGA
1 TTTTGG-AATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGA
** * * *
1420388 AAATAAAACCGGGGTTGGAGTATCCCTGATTGTGGAAAAATTAGTGT
63 TGAT-TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTAT
* *
1420435 TTTAGCG-ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTG-GAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG
* *
1420499 ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTT
65 ATTAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-AT
*
1420543 TTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
1 TTTTGG-AATAAAATCGGAGTTGGAGTATCCCC
1420576 GATTATAGAA
Statistics
Matches: 349, Mismatches: 74, Indels: 63
0.72 0.15 0.13
Matches are distributed among these distances:
101 1 0.00
102 29 0.08
103 49 0.14
104 47 0.13
105 39 0.11
106 49 0.14
107 74 0.21
108 33 0.09
109 28 0.08
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (106 bp):
TTTTGGAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGA
TTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT
Found at i:1420623 original size:50 final size:53
Alignment explanation
Indices: 1420088--1420629 Score: 171
Period size: 52 Copynumber: 10.3 Consensus size: 53
1420078 AAATAACGAG
* * * * * *
1420088 GTTGGAGTATCCTCGATTGTGAA-AAATTGGTATTTTTGGAAATAAAATCGGT
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* * * *
1420140 GTT-GAGCATCCCCGATTA--AAGGAAAATTGGTG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAA-G-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * * * *
1420191 GTTGGAGTATCCCCGATTATGAA-AAATCAAT-ATTTTGGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* *** * **** ** * *
1420242 GTTGGAGTATCCCCTCGGA-AAT-AACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTAT-CCC-C-GATTATGAA-GAAATT--AGTGTTTTTGAAAATAAAATCGGA
* * * * * *
1420297 GTTGGAGTGTCCTCGATTGTGAA-AAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* * * * *
1420349 GTTGGAGTGTCCCCGATTA--AAGGAAAATTGGCG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAA-G-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * * ** *
1420401 GTTGGAGTATCCCTGATTGTGGAA-AAATTAGTGTTTTAG-CGATAAAACCGGA
1 GTTGGAGTATCCCCGATTAT-GAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* *** * **** ** * *
1420453 GTTGGAGTATCCCCTCGGA-AAT-AACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTAT-CCC-C-GATTATGAA-GAAATT--AGTGTTTTTGAAAATAAAATCGGA
* * *
1420508 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
*
1420562 GTTAGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAAT-AAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGA
*
1420612 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1420630 GTGGAGAATT
Statistics
Matches: 353, Mismatches: 97, Indels: 82
0.66 0.18 0.15
Matches are distributed among these distances:
49 2 0.01
50 33 0.09
51 76 0.22
52 123 0.35
53 34 0.10
54 38 0.11
55 30 0.08
56 11 0.03
57 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:1423018 original size:13 final size:13
Alignment explanation
Indices: 1423000--1423025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1422990 ACAAAGATCC
1423000 ATGTATCGATACA
1 ATGTATCGATACA
1423013 ATGTATCGATACA
1 ATGTATCGATACA
1423026 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:1423021 original size:33 final size:33
Alignment explanation
Indices: 1422979--1423045 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1422969 AAAATTTCCA
***
1422979 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1423012 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1423045 A
1 A
1423046 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:1427607 original size:10 final size:10
Alignment explanation
Indices: 1427594--1427635 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
1427584 TTAAAAAAAC
1427594 AAAAAAAGAA
1 AAAAAAAGAA
1427604 AAAAAAAGAAA
1 AAAAAAAG-AA
1427615 AAAAGAAAGAA
1 AAAA-AAAGAA
*
1427626 AAGAAAAGAA
1 AAAAAAAGAA
1427636 CTTGCTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 14 0.48
11 11 0.38
12 4 0.14
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:1427608 original size:17 final size:18
Alignment explanation
Indices: 1427586--1427632 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1427576 CCTTCCTTTT
*
1427586 AAAAAAACAAAAAAAGAA
1 AAAAAAAGAAAAAAAGAA
1427604 AAAAAAAGAAAAAAAG-A
1 AAAAAAAGAAAAAAAGAA
*
1427621 AAGAAAAGAAAA
1 AAAAAAAGAAAA
1427633 GAACTTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAGAA
Found at i:1427627 original size:9 final size:8
Alignment explanation
Indices: 1427586--1427632 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
1427576 CCTTCCTTTT
*
1427586 AAAAAAAC
1 AAAAAAAG
1427594 AAAAAAAG
1 AAAAAAAG
1427602 AAAAAAAAAG
1 --AAAAAAAG
1427612 AAAAAAAG
1 AAAAAAAG
1427620 AAAGAAAAG
1 AAA-AAAAG
1427629 AAAA
1 AAAA
1427633 GAACTTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
8 19 0.54
9 8 0.23
10 8 0.23
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1428825 original size:117 final size:115
Alignment explanation
Indices: 1428601--1429042 Score: 443
Period size: 117 Copynumber: 3.8 Consensus size: 115
1428591 CTCCTTTCAT
* * * * * **
1428601 TTTTC-AGTCCTCAAAGAGTAAGACGCCTTTTCCTTTT-AAAGCCCTCATAAGGTGGTGGCACCT
1 TTTTCTAGTCCTCAAAGAGTAGGA-ACC-TTT-CTTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * *
1428664 TCTAGTCCTCAAGGAGCAGGACGCCTTTCT-AAGCCCACACAAGTTGGTGGCAC
63 TTTAGTCCTCAAAGAGCAGGATGCCTTT-TAAAGCCCACACAAGTTGGTGGCAC
* * * *
1428717 CTTTC-AGTCCTCAAAGTGTAGG-A-C-GTC-TTTCAAAGCCTACACAAGTTGGTGGCATTTTTT
1 TTTTCTAGTCCTCAAAGAGTAGGAACCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTT
*
1428777 TAGTCCTCAAAGAGCATGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
65 TAGTCCTCAAAGAGCA-G--G-A--TGCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1428833 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGTATTTT
1 TTTTCTAGTCCTCAAAGAGTAGGA-ACC-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
** * *
1428898 CCAGTCCTTAAAGAGCAGGATGCCTTTTAAAGCCTACACAAGTTGGTGGCAC
64 TTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
1428950 TTTTCTAGTCCTCAAAGAGTAGGACACCTTTTCTTTTCATAGCCCACACAAGTTGGTGGCACTTT
1 TTTTCTAGTCCTCAAAGAGTAGGA-ACC-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1429015 TTAATCCTCAAAGAGCAGGATTCCTTTT
64 TTAGTCCTCAAAGAGCAGGATGCCTTTT
1429043 TCTTTTCTCT
Statistics
Matches: 270, Mismatches: 39, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
109 3 0.01
110 20 0.07
111 18 0.07
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 53 0.20
117 124 0.46
118 1 0.00
119 2 0.01
120 1 0.00
121 1 0.00
122 20 0.07
123 23 0.09
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (115 bp):
TTTTCTAGTCCTCAAAGAGTAGGAACCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:1428871 original size:61 final size:62
Alignment explanation
Indices: 1428601--1429048 Score: 415
Period size: 61 Copynumber: 7.6 Consensus size: 62
1428591 CTCCTTTCAT
* * * * * *
1428601 TTTTC-AGTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCTCATAAGGTGGTGGCAC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
1428662 -CTTCTAGTCCTCAAGGAGCAGGACGCC-TTT-C---T-AAGCCCACACAAGTTGGTGGCAC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * * *
1428717 CTTTC-AGTCCTCAAAGTGTAGG--A-C--GT-CTTTCAAAGCCTACACAAGTTGGTGGCAT
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1428772 TTTTTTAGTCCTCAAAGAGCATGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
1428833 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGTA-
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1428894 TTTTCCAGTCCTTAAAGAGCAGG--A----TGCCTTTTAAAGCCTACACAAGTTGGTGGCAC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
1428950 TTTTCTAGTCCTCAAAGAGTAGGACACCTTTT-CTTTTCATAGCCCACACAAGTTGGTGGCAC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAC
* ** *
1429012 TTTT-TAATCCTCAAAGAGCAGGATTCCTTTTTCTTTT
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT
1429049 CTCTTTTGTC
Statistics
Matches: 315, Mismatches: 50, Indels: 43
0.77 0.12 0.11
Matches are distributed among these distances:
51 2 0.01
52 1 0.00
55 84 0.27
56 38 0.12
58 1 0.00
59 2 0.01
60 6 0.02
61 123 0.39
62 58 0.18
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (62 bp):
TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:1428962 original size:178 final size:177
Alignment explanation
Indices: 1428601--1429048 Score: 545
Period size: 178 Copynumber: 2.6 Consensus size: 177
1428591 CTCCTTTCAT
* * * **
1428601 TTTTC-AGTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCTCATAAGGTGGTGGCACCTT
1 TTTTCTAGTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* *
1428665 CTAGTCCTCAAGGAGCAGGACGCC-TTTC----TAAGCCCACACAAGTTGGTGGCACCTTTCAGT
66 CTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * *
1428725 CCTCAAAGTGTAGGACGTCTTTCAAAGCCTACACAAGTTGGTGGCAT
131 CCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCAC
* * * *
1428772 TTTTTTAGTCCTCAAAGAGCATGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 TTTTCTAGTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * *
1428837 CTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGTA-TTTTCCA
66 CTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTT-AAGCCCACACAAGTTGGTGGCACCTTT-CA
* * *
1428901 GTCCTTAAAGAGCAGGATGCCTTTTAAAGCCTACACAAGTTGGTGGCAC
129 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCAC
* * *
1428950 TTTTCTAGTCCTCAAAGAGTAGGACACCTTTT-CTTTTCATAGCCCACACAAGTTGGTGGCACTT
1 TTTTCTAGTCCTCAAAGAGTAAGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TT
* **
1429014 TT-TAATCCTCAAAGAGCAGGATTCCTTTTTCTTTT
64 TTCTAGTCCTCAAAGAGCAGGACACC-TTTTCTTTT
1429049 CTCTTTTGTC
Statistics
Matches: 236, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
171 4 0.02
172 73 0.31
173 4 0.02
177 9 0.04
178 133 0.56
179 13 0.06
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (177 bp):
TTTTCTAGTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
CTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAGCCCACACAAGTTGGTGGCACCTTTCAGT
CCTCAAAGAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCAC
Found at i:1429137 original size:45 final size:45
Alignment explanation
Indices: 1429042--1429205 Score: 167
Period size: 45 Copynumber: 3.7 Consensus size: 45
1429032 GGATTCCTTT
* * *
1429042 TTCTTTTCTCTTTTGTCCTCAAAGAGCAAGACACACTTCA-TTCCC
1 TTCTTTTCT-TTTTGTCCTCAAAGAGCAAGACGCATTTCATTTTCC
*
1429087 TTCTTTTCCTTTTTGTCCTCAAAGAGCAAGACGCATTTTATTTTCC
1 TTCTTTT-CTTTTTGTCCTCAAAGAGCAAGACGCATTTCATTTTCC
* * * *
1429133 -TC-TTT-ATTTTGTCCTCAAATAGCAGGACGCATTTCGTTTTCC
1 TTCTTTTCTTTTTGTCCTCAAAGAGCAAGACGCATTTCATTTTCC
* * * *
1429175 TTTTTTTC-CTTTGTCCTCAAAAAGCAGGACG
1 TTCTTTTCTTTTTGTCCTCAAAGAGCAAGACG
1429206 TACTCTTTTT
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
42 32 0.31
43 1 0.01
44 27 0.26
45 36 0.35
46 6 0.06
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (45 bp):
TTCTTTTCTTTTTGTCCTCAAAGAGCAAGACGCATTTCATTTTCC
Found at i:1429162 original size:42 final size:42
Alignment explanation
Indices: 1429097--1429205 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
1429087 TTCTTTTCCT
* * *
1429097 TTTTGTCCTCAAAGAGCAAGACGCATTTTATTTTCCTCTTTA
1 TTTTGTCCTCAAAAAGCAGGACGCATTTCATTTTCCTCTTTA
* * * *
1429139 TTTTGTCCTCAAATAGCAGGACGCATTTCGTTTTCCTTTTTT
1 TTTTGTCCTCAAAAAGCAGGACGCATTTCATTTTCCTCTTTA
1429181 TCCTTTGTCCTCAAAAAGCAGGACG
1 T--TTTGTCCTCAAAAAGCAGGACG
1429206 TACTCTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 37 0.64
44 21 0.36
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (42 bp):
TTTTGTCCTCAAAAAGCAGGACGCATTTCATTTTCCTCTTTA
Found at i:1429254 original size:41 final size:41
Alignment explanation
Indices: 1429208--1429307 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
1429198 GCAGGACGTA
* * *
1429208 CTCTTTTTCACTTTGTCCTCGAGGAGCAGGACAT-TTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGGAGCAAGACATATTTCATT
* * *
1429249 TTCTTTTTTCCTTTATCCTCAAGGAGCAAGACCTATTTCATT
1 CTC-TTTTTCCTTTGTCCTCAAGGAGCAAGACATATTTCATT
1429291 CTC-TTTTCCTTTGTCCT
1 CTCTTTTTCCTTTGTCCT
1429308 AAAAAAGTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 13 0.27
41 22 0.45
42 14 0.29
ACGTcount: A:0.15, C:0.27, G:0.12, T:0.46
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGGAGCAAGACATATTTCATT
Found at i:1429998 original size:20 final size:19
Alignment explanation
Indices: 1429973--1430046 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
1429963 TTTACCTAGA
*
1429973 TGTATCGATGCATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
1429993 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
1430013 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
1430033 TGTATCGATACATT
1 TGTATCGATACATT
1430047 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:1432980 original size:51 final size:49
Alignment explanation
Indices: 1432873--1432981 Score: 116
Period size: 51 Copynumber: 2.2 Consensus size: 49
1432863 GAGTATCCCC
* * *
1432873 TCAAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATT
1 TCAAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAATAGATGATT
* *
1432922 T-AGAAATAAGGCAAGGGTTGAAGTGTCCCCGATTAT-AGAAAATAGATG-TT
1 TCAAAAATAA--C-AGGGTTGAAGTATCCCCGATTATGA-AAAATAGATGATT
1432972 TCAAAAATAA
1 TCAAAAATAA
1432982 AGTCGGGATT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
48 7 0.14
49 1 0.02
50 5 0.10
51 36 0.73
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (49 bp):
TCAAAAATAACAGGGTTGAAGTATCCCCGATTATGAAAAATAGATGATT
Found at i:1433108 original size:28 final size:28
Alignment explanation
Indices: 1433068--1433140 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
1433058 TAAAGCCAGA
** * *
1433068 GTTGGAGTATCCCCTCTGAAGTAATGAG
1 GTTGGAGTATCCCCGATGAAATAACGAG
1433096 GTTGGAGTATCCCCGATGAAATAACGAG
1 GTTGGAGTATCCCCGATGAAATAACGAG
*
1433124 GTTGGAGTATCCTCGAT
1 GTTGGAGTATCCCCGAT
1433141 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (28 bp):
GTTGGAGTATCCCCGATGAAATAACGAG
Found at i:1433178 original size:107 final size:107
Alignment explanation
Indices: 1432990--1433188 Score: 258
Period size: 107 Copynumber: 1.9 Consensus size: 107
1432980 AAAGTCGGGA
* * * *
1432990 TTGGAGTATCCCTGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCGTGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGG
1433055 AAATAAAGCCAGAGTTGGAGTATCCCCTCTGAAGTAATGAGG
66 AAATAAAGCCAGAGTTGGAGTATCCCCTCTGAAGTAATGAGG
* * * * * *
1433097 TTGGAGTATCCCCGATG-AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTG
1 TTGGAGTATCCCCG-TGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTG
**
1433161 GAAATAAAATC-GAAGTTGGAGTATCCCC
65 GAAATAAAGCCAG-AGTTGGAGTATCCCC
1433189 GATTATGGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 75 0.96
108 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (107 bp):
TTGGAGTATCCCCGTGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGG
AAATAAAGCCAGAGTTGGAGTATCCCCTCTGAAGTAATGAGG
Found at i:1433186 original size:51 final size:50
Alignment explanation
Indices: 1433124--1433240 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 50
1433114 AAATAACGAG
* * * *
1433124 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCG-A
* * * * *
1433175 GTTGGAGTATCCCCGATTATGGAAAGTGGGTGTTTTAGAAATAATATCGG
1 GTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGA
1433225 GATTGGAGTATCCCCG
1 G-TTGGAGTATCCCCG
1433241 TGAAAATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAAATGAGTGTTTTAGAAATAAAATCGA
Found at i:1433258 original size:79 final size:79
Alignment explanation
Indices: 1433175--1433349 Score: 212
Period size: 79 Copynumber: 2.2 Consensus size: 79
1433165 TAAAATCGAA
*** * *
1433175 GTTGGAGTATCCCCGATTATG-GAAAGTGGGTGTTTTAGAAATAATA-TCGGGATTGGAGTATCC
1 GTTGGAGTATCCCCGATTATGAGAAA-TCAATATTTTAGAAATAA-AGCCGGGATTGGAGTATCC
*
1433238 CCGT-GAAAATAATGGG
64 CC-TCGAAAATAACGGG
* * *
1433254 GTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGATTGGAGTATCCCC
*
1433319 TCGAAAGTAACGGG
66 TCGAAAATAACGGG
1433333 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
1433350 GAAATAACGA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.02
79 76 0.93
80 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGATTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:1433273 original size:237 final size:237
Alignment explanation
Indices: 1432852--1433421 Score: 821
Period size: 237 Copynumber: 2.4 Consensus size: 237
1432842 TTGGAGATCA
* * * *
1432852 TAACGGGGTTGGAGTATCCCCTCA-AAAATAAC-AGGGTTGGAGTATCCCCGATTGTGAAAAA-T
1 TAACGAGGTTGGAGTATCCCC-GATGAAATAACGA-GGTTGGAGTATCCTCGATTGTGAAAAATT
* * * ** *
1432914 CGATGATTTAGAAAT-AAGGC-AAGGGTTGAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAA
64 AG-TGTTTTGGAAATAAAATCGAA--GTTGAAGTATCCCCGATTATAGAAAATAGATGTTTCAAA
*
1432977 AATAAAGTCGGGATTGGAGTATCCCTGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAA
126 AATAAAGTCGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAA
1433042 ATCAATATTTTGGAAATAAAGCCAGAGTTGGAGTATCCCCTCTG-AAG
191 ATCAATATTTTGGAAATAAAGCCAGAGTTGGAGTATCCCCTC-GAAAG
*
1433089 TAATGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAG
1 TAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAG
* * * * * * *
1433154 TGTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTATGGAAAGTGGGTGTTTTAGAAATAA
66 TGTTTTGGAAATAAAATCGAAGTTGAAGTATCCCCGATTATAGAAAATAGATGTTTCAAAAATAA
1433219 TA-TCGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCA
131 -AGTCGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCA
* *
1433283 ATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAG
195 ATATTTTGGAAATAAAGCCAGAGTTGGAGTATCCCCTCGAAAG
*
1433326 TAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAG
1 TAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAG
*
1433391 TGTTTTGGAAATAAAATCGGAGTTGAAGTAT
66 TGTTTTGGAAATAAAATCGAAGTTGAAGTAT
1433422 ACTCGAGATG
Statistics
Matches: 301, Mismatches: 25, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
236 2 0.01
237 290 0.96
238 7 0.02
239 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (237 bp):
TAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAG
TGTTTTGGAAATAAAATCGAAGTTGAAGTATCCCCGATTATAGAAAATAGATGTTTCAAAAATAA
AGTCGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
TATTTTGGAAATAAAGCCAGAGTTGGAGTATCCCCTCGAAAG
Found at i:1433334 original size:28 final size:27
Alignment explanation
Indices: 1433301--1433372 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
1433291 GAAATAAAGC
1433301 CGGGGTTGGAGTATCCCC-TCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
1433329 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
1433357 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1433373 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:1433421 original size:107 final size:107
Alignment explanation
Indices: 1433222--1433421 Score: 258
Period size: 107 Copynumber: 1.9 Consensus size: 107
1433212 GAAATAATAT
* * *
1433222 CGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCCGTGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* * *
1433287 TTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAGTAA
66 TTTGGAAATAAAACCGGAGTTGAAGTATCCCCTCGAAAGTAA
* * * * * * *
1433329 CGGGGTTGGAGTATCCCCGATG-AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTG
1 CGGGATTGGAGTATCCCCG-TGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATA
*
1433393 TTTTGGAAATAAAATCGGAGTTGAAGTAT
65 TTTTGGAAATAAAACCGGAGTTGAAGTAT
1433422 ACTCGAGATG
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 76 0.97
108 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (107 bp):
CGGGATTGGAGTATCCCCGTGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTGGAAATAAAACCGGAGTTGAAGTATCCCCTCGAAAGTAA
Found at i:1435813 original size:13 final size:13
Alignment explanation
Indices: 1435795--1435820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1435785 ACAAAGATCG
1435795 ATGTATCGATACA
1 ATGTATCGATACA
1435808 ATGTATCGATACA
1 ATGTATCGATACA
1435821 TTTCCTTAGT
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:1436540 original size:40 final size:42
Alignment explanation
Indices: 1436496--1436595 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
1436486 GTCCCATTTT
*
1436496 TTGAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCTTGCTCC
* * * *
1436536 TTGAGGATAAAGGAAGAGAAGAAAAGGAAAGTGTCTTGCTTC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCTTGCTCC
1436578 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
1436596 AATGTACGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
40 16 0.33
41 4 0.08
42 25 0.51
43 4 0.08
ACGTcount: A:0.42, C:0.09, G:0.29, T:0.20
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCTTGCTCC
Found at i:1436662 original size:42 final size:43
Alignment explanation
Indices: 1436616--1436716 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
1436606 CCATTTTTCG
* *
1436616 AGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTCTCTA
1 AGGACAAAAGAAAAAGGGAAAAGAAAGTACGTCCTGCTCTCTA
* * * *
1436658 AGGACAAAAGAAAAA-GGAAAATAAAGTGCGTCCTGCTCTTTG
1 AGGACAAAAGAAAAAGGGAAAAGAAAGTACGTCCTGCTCTCTA
1436700 AGGACAAAAGAGAAAAG
1 AGGACAAAAGA-AAAAG
1436717 AAAGGAAGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.16
42 38 0.76
43 4 0.08
ACGTcount: A:0.47, C:0.15, G:0.25, T:0.14
Consensus pattern (43 bp):
AGGACAAAAGAAAAAGGGAAAAGAAAGTACGTCCTGCTCTCTA
Found at i:1436825 original size:61 final size:59
Alignment explanation
Indices: 1436738--1437446 Score: 717
Period size: 61 Copynumber: 12.2 Consensus size: 59
1436728 ATGTGTCCCA
* *
1436738 CTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGTGTCCTG
1 CTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT--AAAGAAAAGGCGTCCTG
* ** * * * * *
1436799 CCCTTTGAGGACTAGAAGGTGCCACCAACTTATGCGAGCTTTGCAAA-AAGAGAGCATCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT--AAAGAAAAG-GCGTCCTG
* * * *
1436860 CTCTTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAAAGAAAGGTGTCCTG
1 CTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAGA-AAAGGCGTCCTG
* * ** *
1436921 CTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---G-AAAGGTATCCTA
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
* *
1436976 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTT-AAG---AGGCGTCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
* *
1437031 CTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTA
1 CTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGCGTCCTG
*
1437092 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGCGTCCTG
1437153 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----AAAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
* * * * * *
1437208 CTCTTT-ACGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTT----AAAAGGCATCCTA
1 CTCTTTGA-GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
*
1437263 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT---G-AAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
*
1437318 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGCGTCCTG
* *
1437379 CTCTTTGAGGACTAGAAAAGTGCCACCACCTTGTATGGGC--T----AAAAGGCGTCCTG
1 CTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
1437433 CTCTTTGAGGACTA
1 CTCTTTGAGGACTA
1437447 AAGAGCGAAA
Statistics
Matches: 566, Mismatches: 54, Indels: 63
0.83 0.08 0.09
Matches are distributed among these distances:
54 32 0.06
55 235 0.42
56 5 0.01
57 3 0.01
58 1 0.00
60 13 0.02
61 246 0.43
62 31 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (59 bp):
CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTG
Found at i:1437098 original size:232 final size:231
Alignment explanation
Indices: 1436732--1437445 Score: 880
Period size: 232 Copynumber: 3.1 Consensus size: 231
1436722 AAGGAAATGT
* * *
1436732 GTCCCACTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGTGTC
1 GTCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---AAG---AGGCGTC
* * * * * *
1436796 CTGCCCTTTGAGGACT-AGAAGGTGCCACCAACTTATGCGAGCTTTGCAAA-AAGAGAGCATCCT
59 CTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT--AAAGAAAAG-GCGTCCT
* * *
1436859 GCTCTTTGAGGA-TTGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAAAG-AAAGGTGTCCTGC
120 GCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGTGTCCTGC
* * * *
1436922 TCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT
184 TCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1436970 ATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTAAGAGGCGTCCTGCTCT
1 GTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCT
** * *
1437035 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGA
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAAGGCGTCCTGCTCTTTGA
1437100 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCTTTGAGGA
129 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGTGTCCTGCTCTTTGAGGA
1437164 CTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
194 CTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * * * * *
1437202 GTCCTGCTCTTT-ACGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCATCCTACTC
1 GTCCTACTCTTTGA-GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTC
1437266 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT---G-AAAGGCGTCCTGCTCTTTGAG
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTGCTCTTTGAG
* *
1437327 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAGGCGTCCTGCTCTTTGAGGAC
130 GACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGTGTCCTGCTCTTTGAGGAC
* *
1437391 TAGAAAAGTGCCACCACCTTGTATGGGC--TAAAAGGC
195 TAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
1437427 GTCCTGCTCTTTGAGGACT
1 GTCCTACTCTTTGAGGACT
1437446 AAAGAGCGAA
Statistics
Matches: 426, Mismatches: 40, Indels: 33
0.85 0.08 0.07
Matches are distributed among these distances:
225 25 0.06
226 88 0.21
227 19 0.04
231 9 0.02
232 228 0.54
233 11 0.03
235 3 0.01
238 38 0.09
239 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (231 bp):
GTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTGCTCTTTGAGG
ACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACT
AGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:1437447 original size:26 final size:26
Alignment explanation
Indices: 1437366--1437448 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
1437356 CTTTGAAAGG
1437366 AAAAGGCGTCCTGCTCTTTGAGGACT
1 AAAAGGCGTCCTGCTCTTTGAGGACT
* * ** * * *
1437392 AGAAAAGTG-CCACCACCTTGTATGGGCT
1 A-AAAGGCGTCCTGCTCTTTG-A-GGACT
1437420 AAAAGGCGTCCTGCTCTTTGAGGACT
1 AAAAGGCGTCCTGCTCTTTGAGGACT
1437446 AAA
1 AAA
1437449 GAGCGAAATG
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
26 15 0.38
27 12 0.31
28 12 0.31
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (26 bp):
AAAAGGCGTCCTGCTCTTTGAGGACT
Found at i:1438520 original size:1 final size:1
Alignment explanation
Indices: 1438514--1438586 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
1438504 ATTCTTCTCC
* * * * * * * * * *
1438514 TTTTTTTTCTCTTTTTTCTTTATTTTATTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTGTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1438579 TTTTTTTT
1 TTTTTTTT
1438587 GAAAAAGAAT
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.03, C:0.04, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:1438539 original size:11 final size:11
Alignment explanation
Indices: 1438514--1438586 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 11
1438504 ATTCTTCTCC
* *
1438514 TTTTTTTTCTC
1 TTTTTTTTTTG
* *
1438525 TTTTTTCTTTA
1 TTTTTTTTTTG
1438536 TTTTATTTTTTG
1 TTTT-TTTTTTG
1438548 TTTTTTTTTTG
1 TTTTTTTTTTG
1438559 ---TTTTTTTG
1 TTTTTTTTTTG
*
1438567 TTTTTTTGTTG
1 TTTTTTTTTTG
1438578 TTTTTTTTT
1 TTTTTTTTT
1438587 GAAAAAGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
8 8 0.16
11 34 0.67
12 9 0.18
ACGTcount: A:0.03, C:0.04, G:0.07, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1438565 original size:19 final size:19
Alignment explanation
Indices: 1438541--1438584 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1438531 CTTTATTTTA
*
1438541 TTTTTTGTTTTTTTTTTGT
1 TTTTTTGTTTTTTTGTTGT
1438560 TTTTTTGTTTTTTTGTTGT
1 TTTTTTGTTTTTTTGTTGT
1438579 TTTTTT
1 TTTTTT
1438585 TTGAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTGTTTTTTTGTTGT
Found at i:1451248 original size:28 final size:28
Alignment explanation
Indices: 1451208--1451276 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1451198 ATAAAGCCGG
* *
1451208 GGTTAGAGTATCCCCTCG-GAAGTAACGA
1 GGTTGGAGTATCCCCT-GAGAAATAACGA
1451236 GGTTGGAGTAT-CCCTGATGAAATAACGA
1 GGTTGGAGTATCCCCTGA-GAAATAACGA
1451264 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1451277 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 30 0.83
29 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTGAGAAATAACGA
Found at i:1453664 original size:20 final size:20
Alignment explanation
Indices: 1453638--1453693 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1453628 AAAAATGCCT
1453638 AAATGTATCGATACATTGTA
1 AAATGTATCGATACATTGTA
*
1453658 GAATGTATCGATACATTGTA
1 AAATGTATCGATACATTGTA
1453678 AAATGTATCGATACAT
1 AAATGTATCGATACAT
1453694 CTGGGTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATTGTA
Found at i:1453749 original size:13 final size:13
Alignment explanation
Indices: 1453731--1453756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1453721 ACAAAGATCG
1453731 ATGTATCGATACA
1 ATGTATCGATACA
1453744 ATGTATCGATACA
1 ATGTATCGATACA
1453757 TTGAATAATG
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:1455650 original size:15 final size:15
Alignment explanation
Indices: 1455630--1455673 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
1455620 CTTCGTACTA
1455630 AAAAACAAAAAAAAC
1 AAAAACAAAAAAAAC
*
1455645 AAAAACAAAAAAAAT
1 AAAAACAAAAAAAAC
1455660 AAAAA-AATAAAAAA
1 AAAAACAA-AAAAAA
1455674 GAAAGGTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 2 0.07
15 25 0.93
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAAACAAAAAAAAC
Found at i:1456855 original size:28 final size:30
Alignment explanation
Indices: 1456817--1456876 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
1456807 TCTTCTTATC
*
1456817 ATCTTAGGCCAAGAC-CCTTTTGTCAAGAA
1 ATCTTAGGCCAAGACACCATTTGTCAAGAA
**
1456846 ATCTT-GGCCAATTCACCATTTGTCAAGAA
1 ATCTTAGGCCAAGACACCATTTGTCAAGAA
1456875 AT
1 AT
1456877 GGTTGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (30 bp):
ATCTTAGGCCAAGACACCATTTGTCAAGAA
Found at i:1456940 original size:13 final size:12
Alignment explanation
Indices: 1456863--1456944 Score: 58
Period size: 13 Copynumber: 6.3 Consensus size: 12
1456853 CCAATTCACC
1456863 ATTTGTCAAGAA
1 ATTTGTCAAGAA
*
1456875 ATGGTTGTTAAGAA
1 AT--TTGTCAAGAA
1456889 ATTATCGTCAAGAA
1 ATT-T-GTCAAGAA
* *
1456903 CTTTTGTCCAGAA
1 -ATTTGTCAAGAA
*
1456916 TGTTTGTC-AGAA
1 -ATTTGTCAAGAA
1456928 ACTTTGTCAAGAA
1 A-TTTGTCAAGAA
1456941 ATTT
1 ATTT
1456945 TCATCAATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
12 16 0.29
13 19 0.34
14 19 0.34
15 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (12 bp):
ATTTGTCAAGAA
Found at i:1456999 original size:28 final size:29
Alignment explanation
Indices: 1456964--1457465 Score: 387
Period size: 30 Copynumber: 16.9 Consensus size: 29
1456954 CGACCCTTTT
1456964 TCAAAGCCCACAAGTCAGTGGC-ACCTTC
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
*
1456992 TCAAAGCCCACACAAGTCGGTGGCAACCTCTC
1 TCAAAG-CC-CACAAGTCAGTGGCAACCT-TC
* *
1457024 TCAAAGCCCACAAGTTAGTGGCACCCTT-
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
* *
1457052 TCAAAGCCCACAAGTTAGTGGCACCCTT-
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
**
1457080 TCAAAAGACCACACAAGTTGGTGGCAACCTCTC
1 TC-AAAG-CC-CACAAGTCAGTGGCAACCT-TC
* * *
1457113 TTAAAGCCCACAAGTCGGTGGCAACC-CC
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
* *
1457141 TTAAAGCCCACACAAGTCGGTGGCAACCTCTC
1 TCAAAG-CC-CACAAGTCAGTGGCAACCT-TC
* * * *
1457173 TCAAAGCCCATAAATCGGTGGCAACC-CC
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
* *
1457201 TCAAAGCCCACACAAGTCGGTGGCAACCTCTT
1 TCAAAG-CC-CACAAGTCAGTGGCAACCT-TC
* *
1457233 TCAAAGCTCACAAGTCAGTGGC-ACCTTT
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
* * *
1457261 TCAAAGCCCATAAGTTAGTGGCATCCTT-
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
* *
1457289 TCAAAGCCCACAAGTTAGTGGCACCCTT-
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
** *
1457317 TTGAAGCCCACACAAGTCGGTGGCAACCTCTC
1 TCAAAG-CC-CACAAGTCAGTGGCAACCT-TC
* * * *
1457349 TCAAAACCCACAAATCAATGGCATCCTT-
1 TCAAAGCCCACAAGTCAGTGGCAACCTTC
* *
1457377 TTAAAGCCCACAAGTCAATGGCAACCCTTC
1 TCAAAGCCCACAAGTCAGTGGCAA-CCTTC
** *
1457407 T-AAAGCCCACACAAGTTGGTGGCAACCATC
1 TCAAAG-CC-CACAAGTCAGTGGCAACCTTC
1457437 TCTAAAGCCTACACAAGTTC-GTGGCAACC
1 TC-AAAGCC--CACAAG-TCAGTGGCAACC
1457466 CTTATAAATC
Statistics
Matches: 397, Mismatches: 47, Indels: 56
0.79 0.09 0.11
Matches are distributed among these distances:
28 121 0.30
29 30 0.08
30 150 0.38
31 46 0.12
32 48 0.12
33 2 0.01
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.20
Consensus pattern (29 bp):
TCAAAGCCCACAAGTCAGTGGCAACCTTC
Found at i:1458488 original size:20 final size:19
Alignment explanation
Indices: 1458418--1458491 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
1458408 TTTTACCCAG
* *
1458418 ATGTATCCATACATTTTTCA
1 ATGTATCGATACA-TTATCA
*
1458438 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TATCA
* * *
1458458 ATATATTGATACATTCCTCA
1 ATGTATCGATACATT-ATCA
1458478 ATGTATCGATACAT
1 ATGTATCGATACAT
1458492 CTAGTTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.05
20 41 0.95
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
ATGTATCGATACATTATCA
Found at i:1462682 original size:20 final size:20
Alignment explanation
Indices: 1462657--1462696 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1462647 ATAACATAAA
1462657 AAATAAA-CTTTAAAATGAGT
1 AAATAAATC-TTAAAATGAGT
1462677 AAATAAATCTTAAAATGAGT
1 AAATAAATCTTAAAATGAGT
1462697 TTTTTGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (20 bp):
AAATAAATCTTAAAATGAGT
Found at i:1462736 original size:20 final size:20
Alignment explanation
Indices: 1462707--1462744 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1462697 TTTTTGGTTA
*
1462707 AAGTTGAAAAAATAATAATC
1 AAGTTGAAAAAAGAATAATC
*
1462727 AAGTTTAAAAAAGAATAA
1 AAGTTGAAAAAAGAATAA
1462745 GTAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (20 bp):
AAGTTGAAAAAAGAATAATC
Found at i:1465225 original size:29 final size:30
Alignment explanation
Indices: 1465173--1465231 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1465163 CTTATGATCG
1465173 AGAAACTTTCATATCATTCCATGCATTTTA
1 AGAAACTTTCATATCATTCCATGCATTTTA
* **
1465203 AGAAACTTT-ATGTCATTTTATGCATTTTA
1 AGAAACTTTCATATCATTCCATGCATTTTA
1465232 TGTCATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.44
Consensus pattern (30 bp):
AGAAACTTTCATATCATTCCATGCATTTTA
Found at i:1465230 original size:9 final size:10
Alignment explanation
Indices: 1465209--1465241 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
1465199 TTTAAGAAAC
1465209 TTTATGTCAT
1 TTTATGTCAT
1465219 TTTATG-CAT
1 TTTATGTCAT
1465228 TTTATGTCAT
1 TTTATGTCAT
1465238 TTTA
1 TTTA
1465242 GTCCTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (10 bp):
TTTATGTCAT
Found at i:1466250 original size:11 final size:9
Alignment explanation
Indices: 1466226--1466265 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
1466216 ATTTGACATT
1466226 AAAAAATAA
1 AAAAAATAA
*
1466235 AAAATATAA
1 AAAAAATAA
*
1466244 TAAAAATAA
1 AAAAAATAA
1466253 AAAAAATAA
1 AAAAAATAA
1466262 AAAA
1 AAAA
1466266 GAGAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAATAA
Found at i:1466261 original size:27 final size:27
Alignment explanation
Indices: 1466226--1466280 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1466216 ATTTGACATT
* *
1466226 AAAAAATAAAAAATATAATAAAAATAA
1 AAAAAATAAAAAAGAGAATAAAAATAA
*
1466253 AAAAAATAAAAAAGAGAATAAAATTAA
1 AAAAAATAAAAAAGAGAATAAAAATAA
1466280 A
1 A
1466281 TTTTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (27 bp):
AAAAAATAAAAAAGAGAATAAAAATAA
Found at i:1466401 original size:5 final size:5
Alignment explanation
Indices: 1466391--1466415 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1466381 TTCTAGGTGT
1466391 CATTG CATTG CATTG CATTG CATTG
1 CATTG CATTG CATTG CATTG CATTG
1466416 GATTTCATGT
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
CATTG
Found at i:1470488 original size:16 final size:16
Alignment explanation
Indices: 1470467--1470539 Score: 83
Period size: 16 Copynumber: 4.6 Consensus size: 16
1470457 CTTAACATCA
1470467 CACTAACCATTAACTC
1 CACTAACCATTAACTC
* * *
1470483 CACTAACTATGAACAC
1 CACTAACCATTAACTC
1470499 CACTAACCATTAACTC
1 CACTAACCATTAACTC
* ** *
1470515 TACTAATTATTAACTT
1 CACTAACCATTAACTC
1470531 CACTAACCA
1 CACTAACCA
1470540 CTAATTCCTA
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.40, C:0.32, G:0.01, T:0.27
Consensus pattern (16 bp):
CACTAACCATTAACTC
Found at i:1470504 original size:32 final size:32
Alignment explanation
Indices: 1470467--1470539 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
1470457 CTTAACATCA
1470467 CACTAACCATTAACTCCACTAACTATGAACAC
1 CACTAACCATTAACTCCACTAACTATGAACAC
* * * **
1470499 CACTAACCATTAACTCTACTAATTATTAACTT
1 CACTAACCATTAACTCCACTAACTATGAACAC
1470531 CACTAACCA
1 CACTAACCA
1470540 CTAATTCCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.40, C:0.32, G:0.01, T:0.27
Consensus pattern (32 bp):
CACTAACCATTAACTCCACTAACTATGAACAC
Found at i:1480898 original size:17 final size:17
Alignment explanation
Indices: 1480876--1480909 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1480866 CCAAATCTTC
1480876 GCTCAAGAAAAGAAATA
1 GCTCAAGAAAAGAAATA
1480893 GCTCAAGAAAAGAAATA
1 GCTCAAGAAAAGAAATA
1480910 AGAGGGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (17 bp):
GCTCAAGAAAAGAAATA
Found at i:1487252 original size:21 final size:21
Alignment explanation
Indices: 1487227--1487270 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1487217 AATATTTAAA
1487227 TTCAAAAATAGATTTATTATT
1 TTCAAAAATAGATTTATTATT
1487248 TTCAAAAATAGATTTATTATT
1 TTCAAAAATAGATTTATTATT
1487269 TT
1 TT
1487271 TGAATAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTCAAAAATAGATTTATTATT
Found at i:1493633 original size:147 final size:146
Alignment explanation
Indices: 1493364--1493653 Score: 340
Period size: 147 Copynumber: 2.0 Consensus size: 146
1493354 CTTGAAAATT
* * *
1493364 ACTTAAATTTGTCTCAAAAATATTTTAAATATAAATATTCATTTGAAACATTATTTTTTTAGAGA
1 ACTTAAACTTGTCTCAAAAATATTCTAAATATAAATATTCATTTGAAACA-TATTTTTTTAGAAA
1493429 ATTAGAGGTAAGAAAATTAACTTAATATTTTTCAAAATATCTGTAATTTAATTCAAGAAAAAAAT
65 ATTAGAGGTAAGAAAATTAACTTAATATTTTTCAAAATATCTGTAATTTAATTCAAG-AAAAAAT
1493494 ACTAAGTTTAGAAATAATC
129 ACTAAG-TTAGAAATAATC
* ** *
1493513 ACTTAAACTTGTTTCAAAAA-ATTCTATGTATAAATATTCATTTAGGACACA-A-TTTTTTAGAA
1 ACTTAAACTTGTCTCAAAAATATTCTAAATATAAATATTCATTT--GAAACATATTTTTTTAGAA
* ** * * *
1493575 AA-TATGAGGTAAG-AAATCTAATTTTGTATTTTTTAAAATAT-TTTCAGTTTAATTCAAGAAAA
64 AATTA-GAGGTAAGAAAAT-TAACTTAATATTTTTCAAAATATCTGT-AATTTAATTCAAGAAAA
*
1493637 AATGCTAAGTTAGAAAT
126 AATACTAAGTTAGAAAT
1493654 GTATTGAAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
145 8 0.07
146 20 0.16
147 50 0.41
148 21 0.17
149 18 0.15
150 5 0.04
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (146 bp):
ACTTAAACTTGTCTCAAAAATATTCTAAATATAAATATTCATTTGAAACATATTTTTTTAGAAAA
TTAGAGGTAAGAAAATTAACTTAATATTTTTCAAAATATCTGTAATTTAATTCAAGAAAAAATAC
TAAGTTAGAAATAATC
Found at i:1494313 original size:21 final size:21
Alignment explanation
Indices: 1494284--1494338 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1494274 ATACATTATA
1494284 GTATTGATACATTCTAGAAAT
1 GTATTGATACATTCTAGAAAT
*
1494305 GTATCGATACATTCTAGAAAT
1 GTATTGATACATTCTAGAAAT
1494326 GTATTGATACATT
1 GTATTGATACATT
1494339 ATTCAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (21 bp):
GTATTGATACATTCTAGAAAT
Found at i:1494552 original size:18 final size:18
Alignment explanation
Indices: 1494529--1494587 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
1494519 TATCAATTAA
1494529 ATTTATATAAAACCAAAT
1 ATTTATATAAAACCAAAT
* * *
1494547 ATTTATCAAAAAATCAATCAA
1 ATTTAT-ATAAAACCAA--AT
*
1494568 ATTTATATAAGACCAAAT
1 ATTTATATAAAACCAAAT
1494586 AT
1 AT
1494588 GCATTAAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 9 0.29
19 8 0.26
20 7 0.23
21 7 0.23
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (18 bp):
ATTTATATAAAACCAAAT
Found at i:1495560 original size:131 final size:131
Alignment explanation
Indices: 1495325--1495591 Score: 444
Period size: 131 Copynumber: 2.0 Consensus size: 131
1495315 TATCTAGCAT
* * *
1495325 ATAGGCATACACTAAACATTATATCAAGTCTACTTGCAGTAAGATAAAATAATAAGCCTATCATA
1 ATAGGCATACACTAAACATTATATCAAATCTACTTACAGTAAGATAAAACAATAAGCCTATCATA
* * * *
1495390 GACCTATAAAGTATAGAGTCAACATTTTTACCTCCTTTATCTTTTTCAAGCTTTGTTAAAATACT
66 GACCTATAAAATATAAAGTCAACAATTTTACCTCCTTTATCCTTTTCAAGCTTTGTTAAAATACT
1495455 C
131 C
*
1495456 ATAGGCATACACTAAACATTATATCAAATCTACTTACAGTAAGATAAAACAATGAGCCTATCATA
1 ATAGGCATACACTAAACATTATATCAAATCTACTTACAGTAAGATAAAACAATAAGCCTATCATA
**
1495521 GACCTATAAAATATAAAGTCAACAATTTTACCTTTTTTATCCTTTTCAAGCTTTGTTAAAATACT
66 GACCTATAAAATATAAAGTCAACAATTTTACCTCCTTTATCCTTTTCAAGCTTTGTTAAAATACT
1495586 C
131 C
1495587 ATAGG
1 ATAGG
1495592 TGTAGAACAA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 126 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (131 bp):
ATAGGCATACACTAAACATTATATCAAATCTACTTACAGTAAGATAAAACAATAAGCCTATCATA
GACCTATAAAATATAAAGTCAACAATTTTACCTCCTTTATCCTTTTCAAGCTTTGTTAAAATACT
C
Found at i:1500572 original size:20 final size:20
Alignment explanation
Indices: 1500507--1500577 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
1500497 ATAGCCCGAA
* *
1500507 GTATTGATACATTTAAAAAT
1 GTATTGATACATTTATATAT
**
1500527 GTATTGATACATTGCGTAT-T
1 GTATTGATACATT-TATATAT
*
1500547 GTATTGATACATTTTTATAT
1 GTATTGATACATTTATATAT
*
1500567 GCATTGATACA
1 GTATTGATACA
1500578 AATAAGGGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (20 bp):
GTATTGATACATTTATATAT
Found at i:1501001 original size:144 final size:143
Alignment explanation
Indices: 1500742--1501012 Score: 386
Period size: 144 Copynumber: 1.9 Consensus size: 143
1500732 TTGGCTTGAA
* *
1500742 AATCACTTAAACTTGTCTTAAAAAAATTCTAAATATAAATATTCATTTGAAATATTATTTTGAGA
1 AATCACTTAAACTTATCTTAAAAAAATTCTAAATAGAAATATTCATTTGAAATATTATTTTGAGA
*
1500807 GAATTAGAAGTAAGAAAACTAATTTAATATTTTTAAAAATATTTTCAATTTAATTCAAGAAATAT
66 AAATTAGAAGTAAGAAAACTAATTTAATATTTTTAAAAATATTTTCAATTTAATTCAAGAAATAT
1500872 TAAATTTAGAAAT
131 TAAATTTAGAAAT
* * * *
1500885 AATCACTTAAACTTATCTTAAAAACATTCTAAGTAGAAATGTTCATTTAGGACACTA-T-TTTTG
1 AATCACTTAAACTTATCTTAAAAAAATTCTAAATAGAAATATTCATTT--GA-AATATTATTTTG
* * * *
1500948 AGAAAA-TATGAGGTAAGAAAATTAATTTAGTATTTTTCAAAATATTTTCAATTTAATTCAAGAA
63 AGAAAATTA-GAAGTAAGAAAACTAATTTAATATTTTTAAAAATATTTTCAATTTAATTCAAGAA
1501012 A
127 A
1501013 AAGTACTAAG
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
143 45 0.40
144 62 0.55
145 3 0.03
146 3 0.03
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (143 bp):
AATCACTTAAACTTATCTTAAAAAAATTCTAAATAGAAATATTCATTTGAAATATTATTTTGAGA
AAATTAGAAGTAAGAAAACTAATTTAATATTTTTAAAAATATTTTCAATTTAATTCAAGAAATAT
TAAATTTAGAAAT
Found at i:1503181 original size:16 final size:16
Alignment explanation
Indices: 1503160--1503207 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1503150 GACATCATTG
1503160 AGAGAAAATAAAAGAA
1 AGAGAAAATAAAAGAA
*
1503176 AGAGAAGAAT-CAAGAA
1 AGAGAA-AATAAAAGAA
*
1503192 AGA-AAAAAAAAAGAA
1 AGAGAAAATAAAAGAA
1503207 A
1 A
1503208 AAGGAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 2 0.07
15 8 0.30
16 14 0.52
17 3 0.11
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (16 bp):
AGAGAAAATAAAAGAA
Found at i:1503208 original size:6 final size:6
Alignment explanation
Indices: 1503190--1503222 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1503180 AAGAATCAAG
1503190 AAAGAA AAA-AA AAAGAA AAAGGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAA-GAA AAAGAA AAA
1503223 AAGTTTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Done.