Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1569
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: 75253
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:1002 original size:33 final size:33
Alignment explanation
Indices: 965--1031 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
955 TTCAACGATT
965 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
998 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1031 T
1 T
1032 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1003 original size:13 final size:13
Alignment explanation
Indices: 985--1009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975 CATAAAATGT
985 TGTATCGATACAA
1 TGTATCGATACAA
998 TGTATCGATACA
1 TGTATCGATACA
1010 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4412 original size:21 final size:21
Alignment explanation
Indices: 4387--4429 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4377 CATGTCAGGA
4387 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
4408 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
4429 G
1 G
4430 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:8098 original size:7 final size:7
Alignment explanation
Indices: 8086--8129 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
8076 AAAAGTAAAC
8086 ACAAAAA
1 ACAAAAA
8093 AC-AAAA
1 ACAAAAA
8099 ACAAAAA
1 ACAAAAA
8106 ACAAAAAAA
1 AC--AAAAA
8115 ACAAAAA
1 ACAAAAA
8122 ACAAAAA
1 ACAAAAA
8129 A
1 A
8130 AAGGTGCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.18
7 21 0.62
9 7 0.21
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:8108 original size:22 final size:23
Alignment explanation
Indices: 8082--8129 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
8072 AGTCAAAAGT
*
8082 AAACACAAAAAAC-AAAAACAAA
1 AAACAAAAAAAACAAAAAACAAA
8104 AAACAAAAAAAACAAAAAACAAA
1 AAACAAAAAAAACAAAAAACAAA
8127 AAA
1 AAA
8130 AAGGTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (23 bp):
AAACAAAAAAAACAAAAAACAAA
Found at i:8116 original size:16 final size:16
Alignment explanation
Indices: 8082--8131 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
8072 AGTCAAAAGT
* *
8082 AAACACAAAA-AACAA
1 AAACAAAAAACAAAAA
8097 AAACAAAAAACAAAAA
1 AAACAAAAAACAAAAA
8113 AAACAAAAAACAAAAA
1 AAACAAAAAACAAAAA
8129 AAA
1 AAA
8132 GGTGCAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 9 0.28
16 23 0.72
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAACAAAAAACAAAAA
Found at i:8401 original size:16 final size:16
Alignment explanation
Indices: 8370--8401 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8360 TGTTCTTTTC
*
8370 CAAAAAAGAAACAAAA
1 CAAAAAAGAAAAAAAA
8386 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
8402 AAGAGAGGAA
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:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:9369 original size:31 final size:30
Alignment explanation
Indices: 9331--9473 Score: 189
Period size: 31 Copynumber: 4.6 Consensus size: 30
9321 ATACCTTTTT
9331 AAAGTCCACGACTCAGTGGTAATCTCTTCTC
1 AAAGTCCACGACTCAGTGG-AATCTCTTCTC
9362 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGG-AATCTCTTCTC
* * *
9393 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGAATCTCTT-C-TC
* *
9425 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGAATCTCT-TCTC
9455 AAAGTCCACGACTCAGTGG
1 AAAGTCCACGACTCAGTGG
9474 CATTTTTTCT
Statistics
Matches: 104, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
30 26 0.25
31 54 0.52
32 24 0.23
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGAATCTCTTCTC
Found at i:9455 original size:62 final size:62
Alignment explanation
Indices: 9331--9494 Score: 217
Period size: 62 Copynumber: 2.6 Consensus size: 62
9321 ATACCTTTTT
* *
9331 AAAGTCCACGACTCAGTGGTAATCTCTT-CTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGG-CATCTTTTCCTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
9393 AAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCC-TCAAAGTCCACGACTCAGTGGCAATCTCT-TCTC
* * *
9455 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGCCCAC
1 AAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCAC
9495 AACTTCGTGG
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
61 17 0.19
62 53 0.58
63 21 0.23
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:9467 original size:93 final size:93
Alignment explanation
Indices: 9328--9815 Score: 317
Period size: 93 Copynumber: 5.0 Consensus size: 93
9318 CAAATACCTT
*
9328 TTTAAAGTCCACGACTCAGTGGTAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTTC-T
1 TTTAAAGTCCACGACTCAGTGG-CATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTT
* * *
9392 CAAAGTCCACGAC-TCAGTGGCATCTTTTCC
64 CAAAGCCCACAACTTC-GTGGCACCTTTTCC
* * *
9422 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 TTTAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTCTTCTTC
9486 AAAGCCCACAACTTCGTGGCACCTTTTCC
65 AAAGCCCACAACTTCGTGGCACCTTTTCC
* * * * * * * *
9515 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCAACTTCTT
1 TTTAAAGTCCACGACTCAGTGGCA---TC-TCTTCTCAAAGTCCACGACTCAGTGGCATC-TCTT
* *
9580 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATC
61 C--TTCAAAGCCCACAACTTCGTGGCAC-CTTTTC--C
* * * * * * * *
9618 TTT-AAGTCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTTAAAGTCCACGACTCAGTGGCATC-TCTTCTC---AAAGTCCACGACTCAGTGGCA-TC-TCT
* *
9682 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
60 T--C--TTCAAAGCCCACAACTTCGTGGCACC-TTTTC-C
* * * * * *
9722 TTTAAAGCCCACAACTCCGTGGCACTTTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-CTC
1 TTTAAAGTCCACGACTCAGTGGCA-------TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTC
*
9786 -T-TT-AAAGCCCACAACTCCGTGGCACCTTTT
59 TTCTTCAAAGCCCACAACTTCGTGGCACCTTTT
9816 TTTTCTTTTA
Statistics
Matches: 329, Mismatches: 36, Indels: 55
0.78 0.09 0.13
Matches are distributed among these distances:
92 8 0.02
93 72 0.22
94 24 0.07
96 1 0.00
97 25 0.08
98 29 0.09
99 9 0.03
100 24 0.07
101 5 0.02
102 39 0.12
103 9 0.03
104 5 0.02
105 53 0.16
106 1 0.00
108 19 0.06
111 5 0.02
112 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (93 bp):
TTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTTCA
AAGCCCACAACTTCGTGGCACCTTTTCC
Found at i:9717 original size:71 final size:68
Alignment explanation
Indices: 9486--10458 Score: 942
Period size: 71 Copynumber: 14.6 Consensus size: 68
9476 TTTTTTCTTC
* *
9486 AAAGCCCACAACTTCGTGGCACC-TTTTC-CTTTAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
9548 TTT
66 TTT
* * *
9551 CAAAGCCCACAACTCCGTGGCAACTTCTTCT-TTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
*
9615 ATCTTT
64 CT-TTT
* *
9621 -AAGTCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
9685 CTTTT
64 CTTTT
* *
9690 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTTTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC
9755 TCTTTT
64 -CTTTT
*
9761 CAAAGCCCACGACTCCGTGGCA-------CTCTTTAAAGCCCACAACTCCGTGGCACCTTTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACC--TTTTT
*
9819 TCTTTT
63 CCTTTT
* *
9825 AAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCT-C-TTT-AAAGCCCACAACTCCGTGGCACCTTTT
9890 T-CTTTT
62 TCCTTTT
* * *
9896 AAAGCTCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACCTTTTT
9961 -CTGTTT
63 CCT-TTT
* * * *
9967 AAAGCCCACAGCTCCATGGCACCTTCTTCT-TTTCAAAGCCCACGACTCCGTGGCA-C----T-C
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCC
10025 -TTT
65 TTTT
*
10028 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTC-TTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
*
10092 CTGTTC
64 CT-TTT
* *
10098 AAAGCCCACGACTCCGTGGCA-C----TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCC
*
10158 TTCT
65 TTTT
10162 -AAGCCCACAACTCCGTGGCACCTTCTTT-TCCTTCT-AAGCCCACAACTCCGTGGCA-C-----
1 AAAGCCCACAACTCCGTGGCACCTT-TTTCT-CTT-TAAAGCCCACAACTCCGTGGCACCTTTTT
10218 CCTTTT
63 CCTTTT
* * *
10224 -AAGTCCACGACTCCGTGGCA-CTCTTTTC-CTTTAAAGCCCACAACTACGTGGCA-CTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTCTTTAAAGCCCACAACTCCGTGGCACCT-TTTTC
*
10285 CTTCT
64 CTTTT
10290 -AAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCT-AAGCCCACAACTCCGTGGCA-C-----C
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTCTT-TAAAGCCCACAACTCCGTGGCACCTTTTTC
10346 CTTTT
64 CTTTT
* *
10351 -AAGTCCACGACTCCGTGGCA-CTCTTTTC-CTTTAAAGCCCACAACTCCGTGGCA-CTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTCTTTAAAGCCCACAACTCCGTGGCACCT-TTTTC
10412 C-TTT
64 CTTTT
*
10416 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCT-AAGCCCA
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTCTT-TAAAGCCCA
10459 ATATAGCTGG
Statistics
Matches: 779, Mismatches: 59, Indels: 136
0.80 0.06 0.14
Matches are distributed among these distances:
59 4 0.01
60 52 0.07
61 57 0.07
62 24 0.03
63 86 0.11
64 44 0.06
65 12 0.02
66 64 0.08
67 42 0.05
68 115 0.15
69 37 0.05
70 71 0.09
71 139 0.18
72 6 0.01
73 3 0.00
74 23 0.03
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT
TTT
Found at i:9794 original size:27 final size:26
Alignment explanation
Indices: 9762--9814 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
9752 TTCTCTTTTC
*
9762 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTT
9789 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
9815 TTTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.25, C:0.38, G:0.17, T:0.21
Consensus pattern (26 bp):
AAAGCCCACAACTCCGTGGCACCTTT
Found at i:9900 original size:33 final size:33
Alignment explanation
Indices: 9455--10445 Score: 971
Period size: 34 Copynumber: 29.9 Consensus size: 33
9445 ATTTTGTCTC
* * * * *
9455 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
9486 AAAGCCCACAACTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
9518 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
9551 CAAAGCCCACAACTCCGTGGCAACTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
9585 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
9621 -AAGTCCACAACTCCGTGGCACCTTTTTCTCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
9654 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
9690 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
9725 AAAGCCCACAACTCCGTGGCACTTTTTTTCTCTTTT
1 AAAGCCCACAACTCCGTGGCAC--CTTTT-TCTTTT
*
9761 CAAAGCCCACGACTCCGTGGCA-C----TC-TTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
9789 AAAGCCCACAACTCCGTGGCACCTTTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC---TTTTTCTTTT
*
9825 AAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C--TTTTT-CTTTT
9862 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
9896 AAAGCTCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
9932 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
* * *
9967 AAAGCCCACAGCTCCATGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
10000 CAAAGCCCACGACTCCGTGGCA-C----TC-TTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
10028 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT--CTTTT
*
10063 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
* *
10098 AAAGCCCACGACTCCGTGGCA-C--TCT-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
10127 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
*
10162 -AAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTT-CTTTT
10197 -AAGCCCACAACTCCGTGGCACC-----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
10224 -AAGTCCACGACTCCGTGGCA-CTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
* * *
10256 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
*
10290 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
10324 -AAGCCCACAACTCCGTGGCACC-----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
10351 -AAGTCCACGACTCCGTGGCA-CTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
*
10383 AAAGCCCACAACTCCGTGGCA-CTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
10416 AAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC
10446 CCTTCTAAGC
Statistics
Matches: 829, Mismatches: 60, Indels: 139
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.00
27 84 0.10
28 8 0.01
29 26 0.03
30 1 0.00
31 25 0.03
32 33 0.04
33 135 0.16
34 268 0.32
35 64 0.08
36 89 0.11
37 73 0.09
38 21 0.03
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:10034 original size:27 final size:26
Alignment explanation
Indices: 10001--10053 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
9991 TCTTCTTTTC
*
10001 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTT
10028 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
10054 TTCCCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.25, C:0.38, G:0.17, T:0.21
Consensus pattern (26 bp):
AAAGCCCACAACTCCGTGGCACCTTT
Found at i:10231 original size:27 final size:29
Alignment explanation
Indices: 9855--10437 Score: 280
Period size: 33 Copynumber: 18.0 Consensus size: 29
9845 ACTCTTTTTT
9855 TCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TCCTTTT--AAGCCCACAACTCCGTGGCACC
* * *
9886 TTTTTCTTTTAAAGCTCACAACTCTGTGGCACTC
1 ---TCCTTTT-AAGCCCACAACTCCGTGGCAC-C
9920 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 ----T-CCTTTT--AAGCCCACAACTCCGTGGCACC
* * *
9956 TTTTTCTGTTTAAAGCCCACAGCTCCATGGCACC
1 ---TCCT-TTT-AAGCCCACAACTCCGTGGCACC
*
9990 TTCTTCTTTTCAAAGCCCACGACTCCGTGGCA-C
1 -TC--CTTTT--AAGCCCACAACTCCGTGGCACC
*
10023 T-CTTTAAAGCCCACAACTCCGTGGCACC
1 TCCTTTTAAGCCCACAACTCCGTGGCACC
10051 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 ----T-CCTTTT--AAGCCCACAACTCCGTGGCACC
* * *
10087 TTTTTCTGTTCAAAGCCCACGACTCCGTGGCA-C
1 ---TCCT-TT-TAAGCCCACAACTCCGTGGCACC
*
10120 TCTTTTTAAAGCCCACAACTCCGTGGCACTC
1 TCCTTTT-AAGCCCACAACTCCGTGGCAC-C
*
10151 TTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTC
1 ----TCCTTTTAAGCCCACAACTCCGTGGCA-C--C
*
10187 TTTTCCTTCTAAGCCCACAACTCCGTGGCA-C
1 ---TCCTTTTAAGCCCACAACTCCGTGGCACC
* *
10218 -CCTTTTAAGTCCACGACTCCGTGGCACTC
1 TCCTTTTAAGCCCACAACTCCGTGGCAC-C
* *
10247 TTTTCCTTTAAAGCCCACAACTACGTGGCACTC
1 ---TCCTTTTAAGCCCACAACTCCGTGGCAC-C
*
10280 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTC
1 ---TCCTTTTAAGCCCACAACTCCGTGGCAC-C
*
10313 TTTTTCCTTCTAAGCCCACAACTCCGTGGCA-C
1 ----TCCTTTTAAGCCCACAACTCCGTGGCACC
* *
10345 -CCTTTTAAGTCCACGACTCCGTGGCACTC
1 TCCTTTTAAGCCCACAACTCCGTGGCAC-C
*
10374 TTTTCCTTTAAAGCCCACAACTCCGTGGCACTC
1 ---TCCTTTTAAGCCCACAACTCCGTGGCAC-C
*
10407 TTTTCCTTTAAAGCCCACAACTCCGTGGCAC
1 ---TCCTTTTAAGCCCACAACTCCGTGGCAC
10438 TCTTTTTCCC
Statistics
Matches: 467, Mismatches: 41, Indels: 83
0.79 0.07 0.14
Matches are distributed among these distances:
27 65 0.14
28 1 0.00
29 27 0.06
30 2 0.00
31 2 0.00
32 5 0.01
33 137 0.29
34 125 0.27
35 53 0.11
36 30 0.06
37 20 0.04
ACGTcount: A:0.20, C:0.37, G:0.13, T:0.30
Consensus pattern (29 bp):
TCCTTTTAAGCCCACAACTCCGTGGCACC
Found at i:10266 original size:60 final size:60
Alignment explanation
Indices: 10156--10458 Score: 349
Period size: 60 Copynumber: 4.8 Consensus size: 60
10146 CACTCTTTTT
*
10156 CCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCA-C-TCTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
* * *
10218 CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTT-TAAAGCCCACAACTACGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCA--C
*
10280 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 ----CCTTTTAAGCCCACAACTCCGTGGCACTC-TTTTCCTTCTAAGCCCACAACTCCGTGGCAC
* *
10345 CCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTT-TAAAGCCCACAACTCCGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCA--C
*
10407 TTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCTAAGCCCA
1 ----CCTTTTAAGCCCACAACTCCGTGGCACTC-TTTT-CCTTCTAAGCCCA
10459 ATATAGCTGG
Statistics
Matches: 208, Mismatches: 14, Indels: 32
0.82 0.06 0.13
Matches are distributed among these distances:
59 2 0.01
60 57 0.27
61 27 0.13
62 25 0.12
65 1 0.00
66 52 0.25
67 31 0.15
68 12 0.06
69 1 0.00
ACGTcount: A:0.19, C:0.38, G:0.13, T:0.30
Consensus pattern (60 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
Found at i:10515 original size:49 final size:49
Alignment explanation
Indices: 10451--11156 Score: 946
Period size: 49 Copynumber: 14.7 Consensus size: 49
10441 TTTTCCCTTC
* * * *
10451 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
10500 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
10543 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
10592 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
10641 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
10689 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
10732 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
10781 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
10830 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
10879 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
10928 TAAGCCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
10977 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
11026 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
11069 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
11121 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
11157 ACATCCTTTT
Statistics
Matches: 577, Mismatches: 59, Indels: 39
0.85 0.09 0.06
Matches are distributed among these distances:
43 117 0.20
45 3 0.01
47 1 0.00
48 45 0.08
49 375 0.65
50 1 0.00
52 35 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:11143 original size:95 final size:93
Alignment explanation
Indices: 10974--11165 Score: 296
Period size: 95 Copynumber: 2.0 Consensus size: 93
10964 GCACCTTTAT
* * *
10974 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATGTA
*
11039 GCTGGCCTTGAATCAGCACATTGGCA-C
66 GCTGGCCTTGAATCAGCACATTGACATC
* *
11066 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACC--TT-CATCTTTAAGTCCAAT
11131 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGACATC
11162 CTTT
1 CTTT
11166 TTCATCATCT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
92 40 0.44
94 2 0.02
95 43 0.48
96 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (93 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGACATC
Found at i:11202 original size:56 final size:52
Alignment explanation
Indices: 11066--11204 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
11056 ACATTGGCAC
* *
11066 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
11118 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
11174 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
11205 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:12058 original size:33 final size:33
Alignment explanation
Indices: 12021--12087 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
12011 TTCAACGATT
12021 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
12054 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
12087 T
1 T
12088 TTAAGCTATT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:12059 original size:13 final size:13
Alignment explanation
Indices: 12041--12065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12031 CATAAAATGT
12041 TGTATCGATACAA
1 TGTATCGATACAA
12054 TGTATCGATACA
1 TGTATCGATACA
12066 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:12125 original size:13 final size:13
Alignment explanation
Indices: 12107--12131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12097 TGCCAAAAAA
12107 TGTATCGATACAT
1 TGTATCGATACAT
12120 TGTATCGATACA
1 TGTATCGATACA
12132 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12166 original size:66 final size:63
Alignment explanation
Indices: 12041--12184 Score: 148
Period size: 66 Copynumber: 2.2 Consensus size: 63
12031 CATAAAATGT
* * ** *
12041 TGTATCGATACAATGTATCGATACATATTTTTTTGTATCGATACAATTTAAGCTATTGCCAAAAA
1 TGTATCGATACATTGTATCGATACATA-TTCTTTGTATCGATACAATGCAAGCAATTGCC--AAA
12106 A
63 A
* * *
12107 TGTATCGATACATTGTATCGATACACTGA-TCTTTGTATCGATAC-ATGCAGGCAATTTGCCCAG
1 TGTATCGATACATTGTATCGATACA-T-ATTCTTTGTATCGATACAATGCAAGCAA-TTGCCAAA
12170 A
63 A
12171 TGTATCGATACATT
1 TGTATCGATACATT
12185 TTAAAACGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
64 16 0.24
65 6 0.09
66 43 0.64
67 1 0.01
68 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (63 bp):
TGTATCGATACATTGTATCGATACATATTCTTTGTATCGATACAATGCAAGCAATTGCCAAAA
Found at i:12233 original size:52 final size:51
Alignment explanation
Indices: 12141--12262 Score: 185
Period size: 51 Copynumber: 2.4 Consensus size: 51
12131 ACTGATCTTT
*
12141 GTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
12191 CGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 -GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
* *
12243 TTATCGATACATGCAAGCAA
1 GTATCGATACATGCAGGCAA
12263 CTTTTCATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
51 36 0.55
52 27 0.41
53 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (51 bp):
GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:16240 original size:13 final size:13
Alignment explanation
Indices: 16222--16247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16212 ACATTTGGTC
16222 ATGTATCGATACA
1 ATGTATCGATACA
16235 ATGTATCGATACA
1 ATGTATCGATACA
16248 TCTTGTATGT
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:16242 original size:33 final size:32
Alignment explanation
Indices: 16200--16267 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
16190 CGTTACAAGC
16200 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
16233 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
16265 CAA
1 CAA
16268 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:16354 original size:13 final size:13
Alignment explanation
Indices: 16336--16360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16326 TACAGTGGTC
16336 ATGTATCGATACA
1 ATGTATCGATACA
16349 ATGTATCGATAC
1 ATGTATCGATAC
16361 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:19691 original size:21 final size:20
Alignment explanation
Indices: 19661--19699 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
19651 CACATTTTTG
19661 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
19681 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
19700 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:19858 original size:13 final size:13
Alignment explanation
Indices: 19840--19867 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19830 CATTATTCAA
19840 TGTATCGATACAT
1 TGTATCGATACAT
19853 TGTATCGATACAT
1 TGTATCGATACAT
19866 TG
1 TG
19868 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19863 original size:33 final size:33
Alignment explanation
Indices: 19820--19885 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
19810 GCCAAGGAAA
*
19820 TGTATTGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
19853 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
19886 CTGGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:20829 original size:20 final size:20
Alignment explanation
Indices: 20784--20829 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
20774 GTTAACAGCC
*
20784 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
20804 CTATGTTTCATGCA-TTTGTAG
1 C-ATGTTTCATGCATTTTG-AG
20825 CATGT
1 CATGT
20830 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:27321 original size:97 final size:97
Alignment explanation
Indices: 27179--27425 Score: 361
Period size: 97 Copynumber: 2.5 Consensus size: 97
27169 TTTTTGATTG
* * * * *
27179 AAAAACGGGGTTGGAGTATCCCTTCGGAGGAATGAGGTTGGAGTGTCCCTGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGTTGAAGTGTCCCCGATGATGACAATTCA
27244 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
* *
27276 AAAAGTGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATTCA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGTTGAAGTGTCCCCGATGATGACAATTCA
* *
27341 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
* * * *
27373 AAAAGCGGGGTTAGAGTATCTCCTCGGAGGAAT-AGAGTTGGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAG-GTTGAAGTGTCCCCGAT
27426 AAATAAAATT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 1 0.01
97 133 0.99
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.28
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGTTGAAGTGTCCCCGATGATGACAATTCA
AGTGAGAATAAAATTTAAACTTTGATGCGTTT
Found at i:30582 original size:11 final size:12
Alignment explanation
Indices: 30560--30600 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
30550 TCCTTTTCTC
30560 TTTGGTTTTTTT
1 TTTGGTTTTTTT
30572 TTTGGTTTTTTT
1 TTTGGTTTTTTT
*
30584 GTTTTGTTCTTTTT
1 -TTTGGTT-TTTTT
30598 TTT
1 TTT
30601 TTTGAAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.46
13 9 0.35
14 5 0.19
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (12 bp):
TTTGGTTTTTTT
Found at i:33876 original size:51 final size:52
Alignment explanation
Indices: 33768--33879 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 52
33758 ATGGGGCCAA
* *
33768 AGTATCCCCGATTATGGAAAAACGGTGTTCTAAAAAATAAAATTGGGGTTAG
1 AGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAACTGGGGTTAG
* * * * *
33820 AGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAACTGTGGTTGG
1 AGTATCCCCGATTATGGAAAAA-CGATGTTCTAAAAAATAAAACTGGGGTTAG
*
33871 GGTATCCCC
1 AGTATCCCC
33880 TCGAAAATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 31 0.61
52 20 0.39
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (52 bp):
AGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAACTGGGGTTAG
Found at i:33955 original size:79 final size:79
Alignment explanation
Indices: 33813--34007 Score: 275
Period size: 79 Copynumber: 2.5 Consensus size: 79
33803 AATAAAATTG
* * * * * *
33813 GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGTGGTTGGGGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAGTATCC
33878 CCTCGAAAATAAC-
66 CCTCGAAAATAACA
* *
33891 GAGGTTGGAGTATCGCCGATTATGAAAAATTGGCGTTTTAAAAATAAAACCGAGGTTGGAGTATC
1 G-GGTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAGTATC
*
33956 CCCTCGGAAATAACA
65 CCCTCGAAAATAACA
* *
33971 GGGTTGGAGTATCCCCGATTATGAAAAAGTGATGTTT
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGACGTTT
34008 ATCCCCGATT
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 100 0.98
80 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAGTATCC
CCTCGAAAATAACA
Found at i:34018 original size:27 final size:27
Alignment explanation
Indices: 33980--34034 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
33970 AGGGTTGGAG
33980 TATCCCCGATTATGAAAAAGTGATGTT
1 TATCCCCGATTATGAAAAAGTGATGTT
*
34007 TATCCCCGATTATGAAAAATTGATGTT
1 TATCCCCGATTATGAAAAAGTGATGTT
34034 T
1 T
34035 TAGAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (27 bp):
TATCCCCGATTATGAAAAAGTGATGTT
Found at i:34026 original size:106 final size:106
Alignment explanation
Indices: 33901--34113 Score: 327
Period size: 106 Copynumber: 2.0 Consensus size: 106
33891 GAGGTTGGAG
* * *
33901 TATCGCCGATTATGAAAAATTGGCGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAA
1 TATCCCCGATTATGAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAA
*
33966 TAACAGGGTTGGAGTATCCCCGATTATGAAAAAGTGATGTT
66 TAACAGGGTTGGAGTATCCCCGATTATAAAAAAGTGATGTT
* * * * *
34007 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAA
1 TATCCCCGATTATGAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAA
* *
34072 TAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTT
66 TAACAGGGTTGGAGTATCCCCGATTATAAAAAAGTGATGTT
34113 T
1 T
34114 TGGAAATAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (106 bp):
TATCCCCGATTATGAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAA
TAACAGGGTTGGAGTATCCCCGATTATAAAAAAGTGATGTT
Found at i:34042 original size:185 final size:185
Alignment explanation
Indices: 33822--34192 Score: 602
Period size: 185 Copynumber: 2.0 Consensus size: 185
33812 GGGGTTAGAG
* *
33822 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGTGGTTGGGGTATCCCCTCGA-AA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCT-GAGAA
* * *
33886 ATAACGAGGTTGGAGTATCGCCGATTATGAAAAATTGGCGTTTTAAAAATAAAACCGAGGTTGGA
65 ATAACGAGGTTGGAGTATCCCCGATTATAAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGA
33951 GTATCCCCTCGGAAATAACAGGG-TTGGAGTATCCCCGATTATGAAAAAGTGATGTT
130 GTATCCCCTCGGAAATAAC-GGGATTGGAGTATCCCCGATTATGAAAAAGTGATGTT
*
34007 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTGAGAAA
* * ** *
34072 TAACGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAG
66 TAACGAGGTTGGAGTATCCCCGATTATAAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAG
*
34137 TATCCCCTCGGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTT
131 TATCCCCTCGGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAAGTGATGTT
34192 T
1 T
34193 TAGAGATAAA
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
184 4 0.02
185 168 0.98
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (185 bp):
TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTGAGAAA
TAACGAGGTTGGAGTATCCCCGATTATAAAAAATTGACGTTTTAAAAATAAAACCGAGGTTGGAG
TATCCCCTCGGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAAGTGATGTT
Found at i:34085 original size:28 final size:30
Alignment explanation
Indices: 34034--34092 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
34024 AATTGATGTT
34034 TTAGAAATAAAACTGGGGTTGGAGTATCCCC
1 TTAGAAAT-AAACTGGGGTTGGAGTATCCCC
34065 TTAGAAAT-AAC-GGGGTTGGAGTATCCCC
1 TTAGAAATAAACTGGGGTTGGAGTATCCCC
34093 GATTATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 17 0.61
29 3 0.11
31 8 0.29
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (30 bp):
TTAGAAATAAACTGGGGTTGGAGTATCCCC
Found at i:34107 original size:79 final size:79
Alignment explanation
Indices: 34007--34424 Score: 692
Period size: 79 Copynumber: 5.3 Consensus size: 79
33997 AAGTGATGTT
* *
34007 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTTAGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAA
34072 TAACGGGGTTGGAG
66 TAACGGGGTTGGAG
* * *
34086 TATCCCCGATTATAAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAA
*
34151 TAACGGGATTGGAG
66 TAACGGGGTTGGAG
* *
34165 TATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCTCTTGGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAA
34230 TAACGGGGTTGGAG
66 TAACGGGGTTGGAG
* * *
34244 TATCCCCGATTATGAAAAGTTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTTAGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAA
*
34309 TAACGAGGTTGGAG
66 TAACGGGGTTGGAG
* *
34323 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAA
34388 TAACGGGGTTGGAG
66 TAACGGGGTTGGAG
* *
34402 TATCCCCGATTGTAAAAAATTGA
1 TATCCCCGATTATGAAAAATTGA
34425 GAAAGTTAAC
Statistics
Matches: 315, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 315 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAA
TAACGGGGTTGGAG
Found at i:35704 original size:35 final size:34
Alignment explanation
Indices: 35627--35762 Score: 236
Period size: 35 Copynumber: 3.9 Consensus size: 34
35617 TTTCATTTTT
35627 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
* *
35661 ATGTCCATCATTTCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
35696 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
35731 ATGCCCATCATTCCATGCCTTCATTTTTTATT
1 ATGCCCATCATTCCATGCCTTCATTTTTTATT
35763 ATTTTTTTTG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
34 30 0.31
35 67 0.69
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.46
Consensus pattern (34 bp):
ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
Found at i:35707 original size:69 final size:69
Alignment explanation
Indices: 35627--35762 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 69
35617 TTTCATTTTT
* *
35627 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCCATGTCCATCATTTCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTT-T
35691 ATTCC
65 ATTCC
35696 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTTA
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTTA
35761 TT
66 TT
35763 ATTTTTTTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 32 0.50
70 32 0.50
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.46
Consensus pattern (69 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTTA
TTCC
Found at i:35788 original size:12 final size:13
Alignment explanation
Indices: 35768--35796 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35758 TTATTATTTT
35768 TTTTGAATTTTAA
1 TTTTGAATTTTAA
35781 TTTT-AATTTTAA
1 TTTTGAATTTTAA
35793 TTTT
1 TTTT
35797 TTATTTTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:36559 original size:61 final size:61
Alignment explanation
Indices: 36465--36697 Score: 289
Period size: 61 Copynumber: 3.8 Consensus size: 61
36455 AAAAAGTGTG
* * *
36465 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCA
* * *
36526 TCCTGCTCTTCGAGGACTG-AAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAGA-AAAGGCA
*
36587 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAATGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCA
* * *
36648 TCCTGCTCTTTAAGGACTG-AAGGTGCC-CTCAACTTGTGTAGGCTTTGAAA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCAC-CAACTTGTGTGGGCTTTGAAA
36698 GGCGTCTTGC
Statistics
Matches: 151, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
59 5 0.03
60 29 0.19
61 106 0.70
62 11 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCA
Found at i:36805 original size:94 final size:93
Alignment explanation
Indices: 36645--36821 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 93
36635 AAATGAGAAG
* * *
36645 GCATCCTGCTCTTTAAGGACTGAAGGTGCCCTCAACTTGTGTAGGCTTTGAAAGGCGTCTTGCTC
1 GCATCCTGCTCTTTAAGGACTGAAGGTGCCCTCAACTTGTGTAGGCTTTAAAAGGAGTCCTGCTC
36710 TTTGAGGACTAAAAGGTGAAAGGAGAGA
66 TTTGAGGACTAAAAGGTGAAAGGAGAGA
* * *
36738 GCATCCTGCTTTTTGAGGACTAGGAA-GTGCCAC-CAACTTGTGTGGGCTTTAAAAGGAGTCCTG
1 GCATCCTGCTCTTTAAGGACT--GAAGGTGCC-CTCAACTTGTGTAGGCTTTAAAAGGAGTCCTG
*
36801 CTCTTTGAGGACTGAAAGGTG
63 CTCTTTGAGGACTAAAAGGTG
36822 CCACCAACTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 19 0.26
94 51 0.69
95 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCTGCTCTTTAAGGACTGAAGGTGCCCTCAACTTGTGTAGGCTTTAAAAGGAGTCCTGCTC
TTTGAGGACTAAAAGGTGAAAGGAGAGA
Found at i:36940 original size:61 final size:59
Alignment explanation
Indices: 36738--37051 Score: 312
Period size: 61 Copynumber: 5.4 Consensus size: 59
36728 AAAGGAGAGA
* *
36738 GCATCCTGCTTTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTTAAAAG--GA-
1 GCATCCTGCTCTTTGAGGACT--GAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
*
36795 G--TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAG
1 GCATCCTGCTCTTTGAGGACTG-AAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* * *
36848 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAG
1 GCATCCTGCTCTTTGAGGACTG-AAGATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* * *
36909 GCATCCTGCTCTTCGAGGACTAGAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-
1 GCATCCTGCTCTTTGAGGACT-GAAGATGCCACCAACTTGTGTGGGCTTT--AAAAGA-AAAG
* * * *
36970 GCATCTTGCTCTTTGAGTACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCATCCTGCTCTTTGAGGACTGAAGA-TGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAG
*
37031 GCGTCCTGCTCTTTGAGGACT
1 GCATCCTGCTCTTTGAGGACT
37052 AAAGGGTGAA
Statistics
Matches: 218, Mismatches: 20, Indels: 34
0.80 0.07 0.12
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 2 0.01
54 3 0.01
55 86 0.39
57 1 0.00
59 4 0.02
60 7 0.03
61 105 0.48
62 8 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (59 bp):
GCATCCTGCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
Found at i:37019 original size:122 final size:114
Alignment explanation
Indices: 36738--37052 Score: 356
Period size: 122 Copynumber: 2.7 Consensus size: 114
36728 AAAGGAGAGA
* * * *
36738 GCATCCTGCTTTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-GA-G-TCC
1 GCATCCTGCTCTTTGAAGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCTCC
* * *
36799 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TGCTCTTTGAGGACTAGAAAGATGCCACCAACTAGTGTGGGATTTGAAAG
* *
36848 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCAT
1 GCATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGC-T
*
36913 CCTGCTCTTCGAGGACTAG-AAGATGCCACCAACTAGTGTGGGATTTGCAAAAAG
63 CCTGCTCTTTGAGGACTAGAAAGATGCCACCAACTAGTGTGGGATTTG---AAAG
*
36967 AAAGCATCTTGCTCTTTG-AGTACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 ---GCATCCTGCTCTTTGAAG-ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA-AAG
37031 GCGTCCTGCTCTTTGAGGACTA
60 GC-TCCTGCTCTTTGAGGACTA
37053 AAGGGTGAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 22
0.82 0.07 0.10
Matches are distributed among these distances:
110 43 0.25
111 6 0.03
113 1 0.01
114 1 0.01
116 42 0.24
117 1 0.01
119 4 0.02
121 7 0.04
122 68 0.39
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (114 bp):
GCATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCTCCT
GCTCTTTGAGGACTAGAAAGATGCCACCAACTAGTGTGGGATTTGAAAG
Found at i:37149 original size:100 final size:99
Alignment explanation
Indices: 36976--37156 Score: 249
Period size: 100 Copynumber: 1.8 Consensus size: 99
36966 GAAAGCATCT
* * * *
36976 TGCTCTTTGAGTACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTGAAAAGTGCCACAAACTTGTGTGGGCTTTAAAA-GAGAAAGCATCCTGCT
37041 CTTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCC
65 CTTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCC
* *
37076 TGCTCTTTGAGGACT-ACGAAGTGCCACAAACTTGTGTGGGATTTTCAAAA-AGAAAGCATCCTG
1 TGCTCTTTGAGGACTGA-AAAGTGCCACAAACTTGTGTGGG-CTTT-AAAAGAGAAAGCATCCTG
*
37139 CTCTTTGAGGACTGAAGG
63 CTCTTTGAGGACTAAAGG
37157 TGCCACCAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 63 0.89
101 3 0.04
102 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (99 bp):
TGCTCTTTGAGGACTGAAAAGTGCCACAAACTTGTGTGGGCTTTAAAAGAGAAAGCATCCTGCTC
TTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCC
Found at i:37211 original size:54 final size:54
Alignment explanation
Indices: 37134--37318 Score: 334
Period size: 54 Copynumber: 3.4 Consensus size: 54
37124 AAAGAAAGCA
* *
37134 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCG
37188 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCG
*
37242 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCG
*
37296 TCCTGCTCTTTCAGGACTAAAGG
1 TCCTGCTCTTTGAGGACTAAAGG
37319 GTGAAAAGAG
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCG
Found at i:37419 original size:55 final size:54
Alignment explanation
Indices: 37358--37467 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 54
37348 GGACTAGGAA
*
37358 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTCGAGAACTGAAAG
1 GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTCGAGAACT-AAAG
* * *
37413 GTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAG
1 GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTCGAGAACTAAAG
37467 G
1 G
37468 GTGAAAGGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 5 0.10
55 46 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (54 bp):
GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTCGAGAACTAAAG
Found at i:37453 original size:149 final size:149
Alignment explanation
Indices: 37185--37758 Score: 708
Period size: 149 Copynumber: 3.8 Consensus size: 149
37175 GCTTTGAAAG
* *
37185 GCGTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
*
37248 TCTTTGAGGACT-AAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCGTCCTGCTCTTTCAGGA
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
37312 CTAAAGGGTGAAAAGAGAGA
130 CTAAAGGGTGAAAAGAGAGA
* *
37332 GCGTCATGCTATTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* * *
37397 CTTCGAGAACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
*
37462 TAAAGGGTGAAAGGAGAGA
131 TAAAGGGTGAAAAGAGAGA
*
37481 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* * *
37546 CTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * *
37611 TGGAA-GGTGCCACCAACTCGTGTGAGCTTTAAAA
131 T-AAAGGGTG--A--AA------AGAG-----AGA
* * * * * *
37645 GGCATCCTACTCTTTGAGGACT-GAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTA
1 -GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
* * * *
37709 CTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
64 CTCTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCG
37759 AAGGCGTCTT
Statistics
Matches: 377, Mismatches: 29, Indels: 24
0.88 0.07 0.06
Matches are distributed among these distances:
147 20 0.05
148 46 0.12
149 198 0.53
150 2 0.01
151 1 0.00
153 2 0.01
159 3 0.01
164 5 0.01
165 100 0.27
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (149 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
TAAAGGGTGAAAAGAGAGA
Found at i:37485 original size:94 final size:95
Alignment explanation
Indices: 37387--37562 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 95
37377 GCTTTAAAAG
* *
37387 GCGTCCTGCTCTTCGAGAACT-GAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGC
1 GCGTCCTACTCTTCGAGAACTAGAAA-GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGC
37451 TCTTTGAGGACT-AAAGGGTGAAAGGAGAGA
65 TCTTTGAGGACTGAAAGGGTGAAAGGAGAGA
* * * *
37481 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTACTCTTCGAGAACTAGAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCT
37546 CTTTGAGGACTGAAAGG
66 CTTTGAGGACTGAAAGG
37563 TGCCACCAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
94 66 0.89
95 8 0.11
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (95 bp):
GCGTCCTACTCTTCGAGAACTAGAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTGAAAGGGTGAAAGGAGAGA
Found at i:37548 original size:55 final size:54
Alignment explanation
Indices: 37481--38375 Score: 1124
Period size: 55 Copynumber: 16.0 Consensus size: 54
37471 AAAGGAGAGA
* *
37481 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
37536 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
37591 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGAGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
37646 GCATCCTACTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
37701 GCGTCCTACTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTT--AA----AAG
*
37762 GCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-G-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
37818 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAATTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
37873 GCATCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
*
37928 GCGTCCTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 GCGTCCTGCTCTTTGAGGACT--GAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG
* * * *
37987 AAAGCATCCTCCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
1 ---GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
38045 GCGTCTTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * * *
38100 GCATCCTGCTTTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
38155 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
38210 GCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
38265 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
38320 GCGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
38375 G
1 G
38376 AAAAGACGTT
Statistics
Matches: 749, Mismatches: 70, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
54 13 0.02
55 571 0.76
56 55 0.07
57 4 0.01
58 4 0.01
59 4 0.01
60 2 0.00
61 48 0.06
62 48 0.06
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (54 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:37604 original size:29 final size:29
Alignment explanation
Indices: 37521--37604 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 29
37511 CACCAACTTG
* *
37521 TGTGGGCTTTAAAAGGCGTCCTGCTC-TT
1 TGTGGGCTTTGAAAGGTGTCCTGCTCTTT
* * ** *
37549 TGAGGAC--TGAAAGGTG-CCACCAACTTT
1 TGTGGGCTTTGAAAGGTGTCCTGC-TCTTT
37576 TGTGGGCTTTGAAAGGTGTCCTGCTCTTT
1 TGTGGGCTTTGAAAGGTGTCCTGCTCTTT
37605 GAGGACTGGA
Statistics
Matches: 39, Mismatches: 12, Indels: 9
0.65 0.20 0.15
Matches are distributed among these distances:
25 3 0.08
26 8 0.21
27 7 0.18
28 5 0.13
29 13 0.33
30 3 0.08
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGTGTCCTGCTCTTT
Found at i:37844 original size:28 final size:28
Alignment explanation
Indices: 37759--37844 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 28
37749 TTGAAAGGCG
*
37759 AAGGCGTCTTGCTCTTTGAGGACTAGAA
1 AAGGCGTCCTGCTCTTTGAGGACTAGAA
** ** * * * **
37787 AAGTGCCACCAACT-TGTGTGGGCTTTAA
1 AAG-GCGTCCTGCTCTTTGAGGACTAGAA
37815 AAGGCGTCCTGCTCTTTGAGGACTAGAA
1 AAGGCGTCCTGCTCTTTGAGGACTAGAA
37843 AA
1 AA
37845 TGCCACCAAT
Statistics
Matches: 37, Mismatches: 19, Indels: 4
0.62 0.32 0.07
Matches are distributed among these distances:
27 6 0.16
28 26 0.70
29 5 0.14
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (28 bp):
AAGGCGTCCTGCTCTTTGAGGACTAGAA
Found at i:37875 original size:227 final size:221
Alignment explanation
Indices: 37481--38375 Score: 1248
Period size: 227 Copynumber: 4.0 Consensus size: 221
37471 AAAGGAGAGA
*
37481 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA-AAGGCGTCCTGC
1 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAGGCGTCCTGC
* * * *
37545 TCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
66 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
* ** * * * * * *
37610 CTGGAAGGTGCCACCAACTCGTGTGAGCTTTAAAAGGCATCCTACTCTTTGAGGACTGAAAGGTT
131 CTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTGAAAGGTG
37675 CCACCAACTTGTGTGGGCTTTGAAAG
196 CCACCAACTTGTGTGGGCTTTGAAAG
*
37701 GCGTCCTACTCTTTGAAGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCG
1 GCGTCCTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT--AA---GAAGGCG
*
37765 TCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
60 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
37830 TTGAGGACTAGAAAATGCCACCAATTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAA-GACT
124 TTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTT-AAGGACT
37894 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
188 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
37928 GCGTCCTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 GCGTCCTACTCTTTGAGGACTA-GAAAGTGCCACCAACTTGTGTGGGCTTT----A-AGAAGGCG
* * *
37993 TCCTCCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCTTGCTCT
60 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
38057 TTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCATCCTGCTTTTTAAGGACT
124 TTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATCCTGCTCTTTAAGGACT
* *
38121 GGAAA-ATGCCACCAACTTGTGTGGGCTTTGAGAG
188 -GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
38155 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAG-AGGCGTCTTGC
1 GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAGGCGTCCTGC
** * *
38219 TCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGA
66 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
* *
38284 CT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTGAAAGGT
131 CTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTGAAAGGT
38348 GCCACCAACTTGTGTGGGCTTTGAAAG
195 GCCACCAACTTGTGTGGGCTTTGAAAG
38375 G
1 G
38376 AAAAGACGTT
Statistics
Matches: 605, Mismatches: 49, Indels: 42
0.87 0.07 0.06
Matches are distributed among these distances:
219 12 0.02
220 182 0.30
221 4 0.01
222 3 0.00
226 53 0.09
227 290 0.48
228 57 0.09
229 1 0.00
230 2 0.00
231 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (221 bp):
GCGTCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAGGCGTCCTGC
TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
CTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTGAAAGGTG
CCACCAACTTGTGTGGGCTTTGAAAG
Found at i:44158 original size:79 final size:79
Alignment explanation
Indices: 44027--44184 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 79
44017 AAAAGGTTTC
* * * *
44027 CGGAAATAACGGGGTTGGAGTACCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGG
1 CGGAAATAACAGGATTGGAGTACCCCTGATTATGAAAAATTGATGCTTTAGAGATAAAACCAGGG
44092 TTGGAGTATCCCCT
66 TTGGAGTATCCCCT
* *
44106 CGGAAATAACAGGATTGGAGTA-TCCTCGATTATGAAAAGTTGATGCTTTAGAGATAAAACCAGG
1 CGGAAATAACAGGATTGGAGTACCCCT-GATTATGAAAAATTGATGCTTTAGAGATAAAACCAGG
44170 GTTGGAGTATCCCCT
65 GTTGGAGTATCCCCT
44185 AAAAAAGAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
78 3 0.04
79 69 0.96
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGAAATAACAGGATTGGAGTACCCCTGATTATGAAAAATTGATGCTTTAGAGATAAAACCAGGG
TTGGAGTATCCCCT
Found at i:44788 original size:21 final size:20
Alignment explanation
Indices: 44730--44794 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
44720 CCAGTATTAA
* *
44730 TACATTCACTTATGTACCGG
1 TACATTAACTTATGTATCGG
44750 TACATTAACTTATGTATCGG
1 TACATTAACTTATGTATCGG
*
44770 TACATTAACTTATTGTATCGA
1 TACATTAACTTA-TGTATCGG
44791 TACA
1 TACA
44795 AATTATAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 30 0.73
21 11 0.27
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
TACATTAACTTATGTATCGG
Found at i:48146 original size:19 final size:17
Alignment explanation
Indices: 48116--48150 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
48106 TATATTAATG
48116 TATAAATATAAATATAA
1 TATAAATATAAATATAA
48133 TATAAATTATTAAATATA
1 TATAAA-TA-TAAATATA
48151 TCAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAATATAAATATAA
Found at i:48721 original size:6 final size:6
Alignment explanation
Indices: 48666--48698 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
48656 CACTGCCCCC
48666 TTTACT TTTACT TTTACT TTTACT TTTACT TTT
1 TTTACT TTTACT TTTACT TTTACT TTTACT TTT
48699 TGCTTTCGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTACT
Found at i:50233 original size:67 final size:67
Alignment explanation
Indices: 50124--50257 Score: 223
Period size: 67 Copynumber: 2.0 Consensus size: 67
50114 TTCTAGCTCT
* * *
50124 ATTTTGTACTTCATCTTCCAAGCTATACTTAAAAAAAAATTAACAAATTCAATACTATTGTAGTG
1 ATTTTGTACTTCATCTTCCAAGATAAACTTAAAAAAAAATTAACAAATTCAATACTATTCTAGTG
50189 GA
66 GA
* *
50191 ATTTTGTACTTCATCTTCCAAGATAAACTTATAAAAATATTAACAAATTCAATACTATTCTAGTG
1 ATTTTGTACTTCATCTTCCAAGATAAACTTAAAAAAAAATTAACAAATTCAATACTATTCTAGTG
50256 GA
66 GA
50258 TGGATGGGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (67 bp):
ATTTTGTACTTCATCTTCCAAGATAAACTTAAAAAAAAATTAACAAATTCAATACTATTCTAGTG
GA
Found at i:50912 original size:20 final size:21
Alignment explanation
Indices: 50887--50939 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
50877 ATTGATACAT
**
50887 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
50907 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
50928 TGTATCGATACA
1 TGTATCGATACA
50940 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:51032 original size:33 final size:32
Alignment explanation
Indices: 50971--51038 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
50961 GTAGCTAAAC
** *
50971 TTGTATCGATACACACAGTATGTATCGATATA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
51003 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
51036 TTG
1 TTG
51039 GCTTGTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:57678 original size:20 final size:21
Alignment explanation
Indices: 57647--57697 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
57637 CCCTAGGCAT
*
57647 CACCCACCAGGTCGCGACC-GG
1 CACCC-CCAGGTCGCAACCGGG
57668 CACCCCCAGGTCGCAACCGGG
1 CACCCCCAGGTCGCAACCGGG
57689 CAGCCCCCA
1 CA-CCCCCA
57698 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 12 0.44
21 9 0.33
22 6 0.22
ACGTcount: A:0.20, C:0.51, G:0.25, T:0.04
Consensus pattern (21 bp):
CACCCCCAGGTCGCAACCGGG
Found at i:59679 original size:13 final size:13
Alignment explanation
Indices: 59661--59685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59651 ATGTTGCACA
59661 GTATCGATACATT
1 GTATCGATACATT
59674 GTATCGATACAT
1 GTATCGATACAT
59686 GACCAAATGT
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:59795 original size:13 final size:13
Alignment explanation
Indices: 59777--59801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59767 ACACACAGTA
59777 TGTATCGATACAT
1 TGTATCGATACAT
59790 TGTATCGATACA
1 TGTATCGATACA
59802 CCATAAAATG
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:59798 original size:32 final size:33
Alignment explanation
Indices: 59757--59824 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
59747 GTAGCTAAAC
**
59757 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
59789 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
59822 TTG
1 TTG
59825 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:64173 original size:32 final size:32
Alignment explanation
Indices: 64122--64200 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
64112 AACCTTAAGT
* *
64122 GAAGAGGTGACCAGGGCAAAACTTATTAGTCA
1 GAAGAGGTGACTAGAGCAAAACTTATTAGTCA
*
64154 GAAGAGGTAACTAGAGCAAAACTTATTAGTCA
1 GAAGAGGTGACTAGAGCAAAACTTATTAGTCA
* *
64186 AAATAGGTGACTAGA
1 GAAGAGGTGACTAGA
64201 CCGAAACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (32 bp):
GAAGAGGTGACTAGAGCAAAACTTATTAGTCA
Found at i:64213 original size:32 final size:32
Alignment explanation
Indices: 64138--64213 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
64128 GTGACCAGGG
* *
64138 CAAAACTTATTAGTCAGAAGAGGTAACTAGAG
1 CAAAACTTATTAGTCAAAAGAGGTAACTAGAC
* *
64170 CAAAACTTATTAGTCAAAATAGGTGACTAGAC
1 CAAAACTTATTAGTCAAAAGAGGTAACTAGAC
* *
64202 CGAAACATATTA
1 CAAAACTTATTA
64214 ATCGAAGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (32 bp):
CAAAACTTATTAGTCAAAAGAGGTAACTAGAC
Found at i:64324 original size:32 final size:34
Alignment explanation
Indices: 64253--64340 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 34
64243 ATCAAAAGAG
64253 ATGACTAAAGTGAAACCTATTAGTTAAATAAGGT
1 ATGACTAAAGTGAAACCTATTAGTTAAATAAGGT
* * *
64287 A--ACTAAGGTGAAACTTATTAGTT-AA-GAGGT
1 ATGACTAAAGTGAAACCTATTAGTTAAATAAGGT
**
64317 ATGACTAAAGCAAAACCTATTAGT
1 ATGACTAAAGTGAAACCTATTAGT
64341 AAAAAAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 5 0.11
31 2 0.04
32 37 0.82
34 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (34 bp):
ATGACTAAAGTGAAACCTATTAGTTAAATAAGGT
Found at i:64356 original size:33 final size:33
Alignment explanation
Indices: 64317--64381 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
64307 GTTAAGAGGT
64317 ATGACTAAAGCAAAACCTA-TTAGTAAAAAAAAA
1 ATGACTAAAGCAAAACCTAGTT-GTAAAAAAAAA
* * *
64350 ATGACTAAGGTAAAACCTAGTTGTCAAAAAAA
1 ATGACTAAAGCAAAACCTAGTTGTAAAAAAAA
64382 TTACTTGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (33 bp):
ATGACTAAAGCAAAACCTAGTTGTAAAAAAAAA
Done.