Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
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: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 6 of 16
Found at i:961105 original size:52 final size:52
Alignment explanation
Indices: 961060--961188 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
961050 CACTGATTTT
*
961060 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
961112 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
961164 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
961189 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:968376 original size:16 final size:16
Alignment explanation
Indices: 968355--968400 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
968345 TGTTCTTTTC
968355 CAAAAAAGAAACAAAA
1 CAAAAAAGAAACAAAA
968371 CAAAAAAGGAAA-AAAA
1 CAAAAAA-GAAACAAAA
*
968387 -AGAAGAAGAAACAA
1 CA-AAAAAGAAACAA
968401 GCAAACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.19
16 17 0.65
17 4 0.15
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAACAAAA
Found at i:968396 original size:32 final size:29
Alignment explanation
Indices: 968360--968422 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
968350 TTTTCCAAAA
968360 AAGAAACAAAACAAAAAAGGAAAAAAAAGAAG
1 AAGAAAC-AAACAAAAAA--AAAAAAAAGAAG
* *
968392 AAGAAACAAGCAAACAAAAAAAAAAGAAG
1 AAGAAACAAACAAAAAAAAAAAAAAGAAG
968421 AA
1 AA
968423 AGGAAAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.48
31 8 0.28
32 7 0.24
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (29 bp):
AAGAAACAAACAAAAAAAAAAAAAAGAAG
Found at i:969482 original size:30 final size:30
Alignment explanation
Indices: 969374--969532 Score: 131
Period size: 31 Copynumber: 5.1 Consensus size: 30
969364 TTCAAATACC
* * * *
969374 TTCTTAAAGTCCACGACTCCGTGGCACCTTCT
1 TTCTCAAAATCCACGACTCAGTGGCA--TTTT
*
969406 TT-TCAAAGTCCACGACTCAGTGGCATCTTT
1 TTCTCAAAATCCACGACTCAGTGGCAT-TTT
* * *
969436 TTCTTTAAAGTCCACGACTTAGTGGCATTTT
1 TTC-TCAAAATCCACGACTCAGTGGCATTTT
*
969467 GTCTCAAAATCCACGACTCAGTGGCATTTT
1 TTCTCAAAATCCACGACTCAGTGGCATTTT
* * * * *
969497 TTCTTAAAAGCCCACAACTCCGTGGCACCTTT
1 TTCTCAAAA-TCCACGACTCAGTGGCA-TTTT
969529 TTCT
1 TTCT
969533 TTTTAAAGCC
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.01
30 35 0.33
31 40 0.37
32 31 0.29
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (30 bp):
TTCTCAAAATCCACGACTCAGTGGCATTTT
Found at i:969485 original size:62 final size:61
Alignment explanation
Indices: 969377--969524 Score: 183
Period size: 61 Copynumber: 2.4 Consensus size: 61
969367 AAATACCTTC
* *
969377 TTAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTCT
1 TTAAAGTCCACGACTCAGTGGCA-CTTCTTTTCAAAATCCACGACTCAGTGGCAT-TTTTTCT
*
969440 TTAAAGTCCACGACTTAGTGGCA-TT-TTGTCTCAAAATCCACGACTCAGTGGCATTTTTTCT
1 TTAAAGTCCACGACTCAGTGGCACTTCTT-T-TCAAAATCCACGACTCAGTGGCATTTTTTCT
* * * *
969501 TAAAAGCCCACAACTCCGTGGCAC
1 TTAAAGTCCACGACTCAGTGGCAC
969525 CTTTTTCTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
60 2 0.03
61 28 0.38
62 23 0.31
63 21 0.28
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (61 bp):
TTAAAGTCCACGACTCAGTGGCACTTCTTTTCAAAATCCACGACTCAGTGGCATTTTTTCT
Found at i:969544 original size:34 final size:34
Alignment explanation
Indices: 969503--969706 Score: 168
Period size: 34 Copynumber: 6.3 Consensus size: 34
969493 TTTTTTCTTA
*
969503 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
** *
969537 AAAGCCCACAACTCCGTGGCATTTTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCCTTTT
*
969572 -AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
969599 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
969635 -AAGTCCACAATTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
969662 -AAGTCCACAACTCCGTGGCATCTTTCTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
969695 CAAAAGCCCACA
1 --AAAGCCCACA
969707 CAAGTCGGTG
Statistics
Matches: 139, Mismatches: 12, Indels: 36
0.74 0.06 0.19
Matches are distributed among these distances:
27 30 0.22
28 20 0.14
30 1 0.01
33 7 0.05
34 40 0.29
35 27 0.19
36 14 0.10
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.31
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:969644 original size:63 final size:61
Alignment explanation
Indices: 969380--969694 Score: 262
Period size: 62 Copynumber: 5.0 Consensus size: 61
969370 TACCTTCTTA
* * * * *
969380 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGTCCACGACTCAGTGGCATCTTTTT-CTTTA
1 AAGTCCACAACTCCGTGGCACC--CTTTT-AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** ** ** * * **
969443 AAGTCCACGACTTAGTGGCA-TTTTGTCTCAAAATCCACGACTCAGTGGCAT-TTTTT-CTTAA
1 AAGTCCACAACTCCGTGGCACCCTT-T-T-AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
969504 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCATTTTTTTTCCT
1 AAGTCCACAACTCCGTGGCACC-----C-TTTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCCT
*
969569 TCT
59 TTT
969572 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT-CCTTTT
* * *
969635 AAGTCCACAATTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
969695 CAAAAGCCCA
Statistics
Matches: 214, Mismatches: 25, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
60 8 0.04
61 32 0.15
62 73 0.34
63 50 0.23
65 17 0.08
66 2 0.01
67 6 0.03
68 26 0.12
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:969650 original size:35 final size:36
Alignment explanation
Indices: 969592--969661 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
969582 CTCCGTGGCA
*
969592 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
* *
969628 CCCTTTT-AAGTCCACAATTCCGTGGCACCCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
969662 AAGTCCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.19, C:0.36, G:0.11, T:0.34
Consensus pattern (36 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
Found at i:969666 original size:27 final size:27
Alignment explanation
Indices: 969628--969681 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
969618 CACTCTTTTT
*
969628 CCCTTTTAAGTCCACAATTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
969655 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
969682 TCTTTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:969734 original size:33 final size:33
Alignment explanation
Indices: 969689--970052 Score: 533
Period size: 33 Copynumber: 11.2 Consensus size: 33
969679 GCATCTTTCT
* *
969689 CCTTT-TCAAAAGCCCACACAAGTCGGTGGTAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
969721 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
969754 CC-TTCTTCTAAAGCCCACACAAGTCGGTGACAA
1 CCTTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
*
969787 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
969820 CCCTTCTC-AAAGCCCGCACAAGTTGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
**
969852 CCACTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
969885 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
969918 CC-TTCTTTTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
*
969951 CCCTTCTC-AAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
969983 CC-CTCTTTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
970015 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
970048 CCTTT
1 CCTTT
970053 TAAGTCCAAT
Statistics
Matches: 303, Mismatches: 21, Indels: 15
0.89 0.06 0.04
Matches are distributed among these distances:
31 3 0.01
32 90 0.30
33 204 0.67
34 6 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
CCTTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:969773 original size:66 final size:65
Alignment explanation
Indices: 969689--970051 Score: 515
Period size: 65 Copynumber: 5.6 Consensus size: 65
969679 GCATCTTTCT
* *
969689 CCTT-TTCAAAAGCCCACACAAGTCGGTGGTAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTCTAAAGCCCACACAAGTCGGTGGCA
969753 A
65 A
*
969754 CCTTCTTCTAAAGCCCACACAAGTCGGTGACAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCTCTAAAGCCCACACAAGTCGGTGGCA
969819 A
65 A
* * *
969820 CC--CTTCTCAAAGCCCGCACAAGTTGGTGGCAACCACTCTCTAAAGCCCACACAAGTCGGTGGC
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAACC-TTCTCTAAAGCCCACACAAGTCGGTGGC
969883 AA
64 AA
*
969885 CCTT-TCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTTTAAAGCCCACACAAGTCGGTGGC
1 CCTTCT-TCTAAAGCCCACACAAGTCGGTGGCAACCTTC-TCTAAAGCCCACACAAGTCGGTGGC
969949 AA
64 AA
* * *
969951 CC--CTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCA
970014 A
65 A
970015 CCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
970052 TTAAGTCCAA
Statistics
Matches: 271, Mismatches: 14, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
64 38 0.14
65 114 0.42
66 113 0.42
67 6 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (65 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:969775 original size:131 final size:128
Alignment explanation
Indices: 969697--970055 Score: 562
Period size: 131 Copynumber: 2.8 Consensus size: 128
969687 CTCCTTTTCA
* *
969697 AAAGCCCACACAAGTCGGTGGTAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
*
969762 TAAAGCCCACACAAGTCGGTGACAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
65 TAAAGCCCACACAAGTCGGTGGCAACCCTT-T-TAAAGCCCACACAAGTCGGTGGCAACCCTTCT
969827 C
128 C
* *
969828 AAAGCCCGCACAAGTTGGTGGCAACCACTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT-TCT
1 AAAGCCCACACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCT-T
969892 CTAAAGCCCACACAAGTCGGTGGCAACCTTCTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTC
64 CTAAAGCCCACACAAGTCGGTGGCAACC--CTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTC
969957 TC
127 TC
* *
969959 AAAGCCCACACAAGTCGGTGGCAACCCTCTTTAAAGCCCACACAAGTTGGTGGCAACCATTC-TC
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTTC
970023 TAAAGCCCACACAAGTCGGTGGCAA-CCTTTTAA
65 TAAAGCCCACACAAGTCGGTGGCAACCCTTTTAA
970056 GTCCAATATC
Statistics
Matches: 213, Mismatches: 10, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
127 7 0.03
129 1 0.00
130 58 0.27
131 143 0.67
132 1 0.00
133 3 0.01
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (128 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCT
AAAGCCCACACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:970166 original size:43 final size:43
Alignment explanation
Indices: 970099--970519 Score: 401
Period size: 43 Copynumber: 9.1 Consensus size: 43
970089 GCACCTTCAT
*
970099 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
970142 CTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* * *
970194 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
970237 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* * *
970284 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-AC
* *
970330 TTTGTCATCCTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 -----C-T--TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
970381 CTTTAAGTCCAATATAGCTAGCCTTGAATCAACATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
970428 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
970473 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
970516 CTTT
1 CTTT
970520 TCCATCTTTA
Statistics
Matches: 316, Mismatches: 34, Indels: 56
0.78 0.08 0.14
Matches are distributed among these distances:
43 154 0.49
44 1 0.00
45 2 0.01
46 3 0.01
47 2 0.01
49 80 0.25
50 1 0.00
51 2 0.01
52 71 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:970239 original size:21 final size:21
Alignment explanation
Indices: 970215--970282 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
970205 ATGTTGCTGG
970215 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * * *
970236 CCTTTAAGTCCAATATAGCTGG--
1 CCTTGAA-T-CAACACA-TTGGCA
*
970258 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAACACATTGGCA
970279 CCTT
1 CCTT
970283 CATCTTTAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 11 0.33
22 7 0.21
23 5 0.15
24 3 0.09
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:970311 original size:144 final size:143
Alignment explanation
Indices: 970052--970476 Score: 590
Period size: 144 Copynumber: 3.0 Consensus size: 143
970042 TGGCAACCTT
* * * * *
970052 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGCACCTTCATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA----C--CTTTAAGTCCAATATAGC
* *
970117 TGGCCTTGAATCAGCACATTGGCA----C-CTTTAAGTCTAATATCGCTAGCCTTGAATCAGCAT
60 TGGCCTTGAATCAGCACATTGGCACCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
*
970177 ATTGGCGCCTTTGTCATCT
125 ATTGGCGCCTTTGTCATCC
*
970196 TTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTGGCCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTGGCCT
970261 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
66 TGAATCAGCACATTGGCACCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
970326 CGCCTTTGTCATCC
130 CGCCTTTGTCATCC
* *
970340 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTGGCCT
* * * * *
970405 TGAATCAACATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
66 TGAATCAGCACATTGGCACCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
970470 CACCTTT
130 CGCCTTT
970477 AAGTCCAATA
Statistics
Matches: 256, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
138 41 0.16
140 1 0.00
142 1 0.00
144 213 0.83
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (143 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTGGCCT
TGAATCAGCACATTGGCACCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
GCCTTTGTCATCC
Found at i:970387 original size:187 final size:184
Alignment explanation
Indices: 970042--970572 Score: 573
Period size: 187 Copynumber: 2.8 Consensus size: 184
970032 CACAAGTCGG
* * *
970042 TGGCAACCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTTGCACCTTCATCTTTAAGT
1 TGGC-ACC-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * *
970107 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC----C-T-TTAAGTCTAATATCGCTAGCCT
64 CCAATATAGCTGGCCTTGAATCAGCATATTGGCCCTTTTCATCTTAAGTCCAATGTCGCTGGCCT
* * * * *
970166 TGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACAT
129 TGAATCAGCACATT---G-----G-CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACACAT
970231 TGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
1 TGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
970296 AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTAAGTCCAATGTCGCTGGCC
66 AATATAGCTGGCCTTGAATCAGCATATTGGC-CCTTT-TCAT-CTTAAGTCCAATGTCGCTGGCC
*
970361 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACATAT
128 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACACAT
*
970418 TGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTT
1 TGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* **
970477 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAA
60 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-CCTTTT-CATC-TTAAGTCCAATGTCG
*
970542 CTGGCCTTGAATCAGCACATTGACATCCTTT
122 CTGGCCTTGAATCAGCACATTGGCA-CCTTT
970573 TTCTCATCTT
Statistics
Matches: 301, Mismatches: 23, Indels: 37
0.83 0.06 0.10
Matches are distributed among these distances:
186 2 0.01
187 207 0.69
188 10 0.03
189 5 0.02
191 1 0.00
193 43 0.14
194 1 0.00
196 32 0.11
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (184 bp):
TGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
AATATAGCTGGCCTTGAATCAGCATATTGGCCCTTTTCATCTTAAGTCCAATGTCGCTGGCCTTG
AATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACACAT
Found at i:970467 original size:92 final size:92
Alignment explanation
Indices: 970286--970572 Score: 414
Period size: 95 Copynumber: 3.0 Consensus size: 92
970276 GCACCTTCAT
* *
970286 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT-TGTCATCCTTAAGTCCAA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TC-T--TTAAGTCCAA
*
970350 TGTCGCTGGCCTTGAATCAGCACATTGGCAC
62 TGTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
970381 CTTTAAGTCCAATATAGCTAGCCTTGAATCAACATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
970446 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
970473 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTTCTTTAAGTCCAAT
* *
970538 GTAACTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
970569 CTTT
1 CTTT
970573 TTCTCATCTT
Statistics
Matches: 176, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
92 82 0.47
94 3 0.02
95 85 0.48
96 6 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:971305 original size:13 final size:13
Alignment explanation
Indices: 971287--971345 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
971277 ACATAAAGTG
971287 TTGTATCGATACA
1 TTGTATCGATACA
971300 TTGTATCGATACATAA
1 TTGTATCGATAC---A
971316 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
*
971332 ATGTATCGATACA
1 TTGTATCGATACA
971345 T
1 T
971346 AAGTTTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 24 0.63
16 2 0.05
19 12 0.32
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:971323 original size:32 final size:32
Alignment explanation
Indices: 971268--971368 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
971258 TTCAACGATT
*
971268 TGTATCGATACATAAAGTGTTGTATCGATACAT
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
971301 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
971333 TGTATCGATACATAAGTTTTGTAACGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
971365 TGTA
1 TGTA
971369 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:971324 original size:19 final size:18
Alignment explanation
Indices: 971266--971363 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
971256 ATTTCAACGA
971266 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
971285 TGTTGTATCGATAC---A-
1 T-TTGTATCGATACATAAG
971300 -TTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
971317 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
971333 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
971349 TTTTGTAACGATACA
1 -TTTGTATCGATACA
971364 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 23 0.35
15 2 0.03
16 2 0.03
17 2 0.03
19 24 0.37
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:971424 original size:13 final size:13
Alignment explanation
Indices: 971406--971430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
971396 ATTACTCAAA
971406 TGTATCGATACAT
1 TGTATCGATACAT
971419 TGTATCGATACA
1 TGTATCGATACA
971431 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:974680 original size:3 final size:3
Alignment explanation
Indices: 974666--974695 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
974656 CCACTCAAAG
*
974666 TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
974696 GGTTGAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:979090 original size:19 final size:20
Alignment explanation
Indices: 979044--979099 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
979034 AGATTTTTTT
*
979044 CAAAATGTATCGATATAATA
1 CAAAATGTATCAATATAATA
*
979064 CAAAATGTATCAATATACTA
1 CAAAATGTATCAATATAATA
979084 C-AAATGTATCAATATA
1 CAAAATGTATCAATATA
979100 TATAGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (20 bp):
CAAAATGTATCAATATAATA
Found at i:979174 original size:27 final size:27
Alignment explanation
Indices: 979136--979201 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
979126 TAATGAACAA
*
979136 TGTATCGATACATCTGGGTTTCTAGAT
1 TGTATCGATACATCTAGGTTTCTAGAT
*
979163 TGTATTGATACATCTAGGTTTCTAGAT
1 TGTATCGATACATCTAGGTTTCTAGAT
979190 TGTATCGATACA
1 TGTATCGATACA
979202 CTCACTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
TGTATCGATACATCTAGGTTTCTAGAT
Found at i:986316 original size:56 final size:56
Alignment explanation
Indices: 986247--986370 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 56
986237 GATGTCATCG
* * * * *
986247 GCCATGTTATAAGCCTAGAAAAGTTAGACCATAGTGAGTAAACCCCAATATAGCTG
1 GCCATGTTGTAAGCCGAGAAAAGTTAGACCATAATGAGTAAACCCCAATATAACTA
* * * * * * *
986303 GCTATGTTGTAAGCCGAGTAATGTTGGTCCATAATGAGTAAAGCCCAATGTAACTA
1 GCCATGTTGTAAGCCGAGAAAAGTTAGACCATAATGAGTAAACCCCAATATAACTA
986359 GCCATGTTGTAA
1 GCCATGTTGTAA
986371 ACGTAAGGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (56 bp):
GCCATGTTGTAAGCCGAGAAAAGTTAGACCATAATGAGTAAACCCCAATATAACTA
Found at i:986663 original size:79 final size:77
Alignment explanation
Indices: 986529--986673 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 77
986519 AAAAGTACAG
*
986529 TGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGAAAGAGAAAGTCTAATTTAGTTAGTTTAG
1 TGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGAAAGAGAAAGTCCAATTTAGTTAGTTTAG
986594 ATAGACGACTAA
66 ATAGACGACTAA
* * * * ** *
986606 TGTGTTTGGCATCTTTA-GGAAGGTTTTGCCTTATAAAGAGAGATTAAGTCCAATTTAGTTGGTT
1 TGTGATTGGCACCTTTAGGGAA-GTTATG-CTT-TAAAGAAAGAGAAAGTCCAATTTAGTTAGTT
986670 TAGA
63 TAGA
986674 GGGAAGACCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
76 4 0.07
77 20 0.35
78 3 0.05
79 30 0.53
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (77 bp):
TGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGAAAGAGAAAGTCCAATTTAGTTAGTTTAG
ATAGACGACTAA
Found at i:990617 original size:22 final size:22
Alignment explanation
Indices: 990589--990658 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
990579 ATGCATTTTA
*
990589 TTATAGTTATATGTACATAATG
1 TTATAGTCATATGTACATAATG
* * *
990611 TTGTAGTGATATGTACATAATA
1 TTATAGTCATATGTACATAATG
* *
990633 TTATAATCATATGTACATATTG
1 TTATAGTCATATGTACATAATG
990655 TTAT
1 TTAT
990659 TGTAAAATGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (22 bp):
TTATAGTCATATGTACATAATG
Found at i:993853 original size:51 final size:52
Alignment explanation
Indices: 993745--993882 Score: 199
Period size: 51 Copynumber: 2.7 Consensus size: 52
993735 TATTGTCTGC
* * *
993745 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATAAAAAATGTATCGATACATTCGGGTCAAAAACCCAGA
* *
993797 ATGTATCAATACAATAAAAAATGTATCGATACATTCGGGTC-ATAACCCA-A
1 ATGTATCGATACAATAAAAAATGTATCGATACATTCGGGTCAAAAACCCAGA
*
993847 ACTGTATCGATACAATCAAAAATGTATCGATACATT
1 A-TGTATCGATACAATAAAAAATGTATCGATACATT
993883 TCCATTCCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
50 2 0.03
51 39 0.50
52 37 0.47
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACAATAAAAAATGTATCGATACATTCGGGTCAAAAACCCAGA
Found at i:995147 original size:22 final size:22
Alignment explanation
Indices: 995122--995191 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
995112 TATCTTTATG
*
995122 CATATTATTATAGTTATATGTA
1 CATAATATTATAGTTATATGTA
** * *
995144 CATAATGGTGTAGTGATATGTA
1 CATAATATTATAGTTATATGTA
*
995166 CATAATATTACAGTTATATGTA
1 CATAATATTATAGTTATATGTA
995188 CATA
1 CATA
995192 TTGTTATTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.41
Consensus pattern (22 bp):
CATAATATTATAGTTATATGTA
Found at i:995209 original size:44 final size:44
Alignment explanation
Indices: 995122--995209 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
995112 TATCTTTATG
* * * * *
995122 CATATTATTATAGTTATATGTACATAATGGTGTAGTGATATGTA
1 CATAATATTACAGTTATATGTACATAATGGTATAGTAAAATGTA
* * *
995166 CATAATATTACAGTTATATGTACATATTGTTATTGTAAAATGTA
1 CATAATATTACAGTTATATGTACATAATGGTATAGTAAAATGTA
995210 TATTCAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (44 bp):
CATAATATTACAGTTATATGTACATAATGGTATAGTAAAATGTA
Found at i:995344 original size:22 final size:22
Alignment explanation
Indices: 995260--995346 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
995250 GTAATGGTTC
*
995260 TTTTGGAAAAGGTTAGTTATCTT
1 TTTTGG-AAAGGTTAGTTCTCTT
* *
995283 TCTTGGAAAGGTTGGTTCTC-T
1 TTTTGGAAAGGTTAGTTCTCTT
* *
995304 TTGT-GATGAA-GCTAGTTCTCTT
1 TTTTGGA--AAGGTTAGTTCTCTT
*
995326 TTTTGGAAGGGTTAGTTCTCT
1 TTTTGGAAAGGTTAGTTCTCT
995347 GTGTGAAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
20 2 0.04
21 12 0.24
22 28 0.57
23 7 0.14
ACGTcount: A:0.18, C:0.10, G:0.25, T:0.46
Consensus pattern (22 bp):
TTTTGGAAAGGTTAGTTCTCTT
Found at i:995965 original size:19 final size:17
Alignment explanation
Indices: 995940--996004 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
995930 ATTTCAACGA
995940 TTTGTATCGATACATAGG
1 TTTGTATCGATACATA-G
995958 TGTTGTATCGATACA-A-
1 T-TTGTATCGATACATAG
995974 --TGTATCGATACATAAG
1 TTTGTATCGATACAT-AG
995990 TTTTGTATCGATACA
1 -TTTGTATCGATACA
996005 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.30
15 1 0.03
18 2 0.05
19 25 0.62
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (17 bp):
TTTGTATCGATACATAG
Found at i:995978 original size:32 final size:32
Alignment explanation
Indices: 995942--996009 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
995932 TTCAACGATT
*
995942 TGTATCGATACATAGGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
995974 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
996006 TGTA
1 TGTA
996010 CAGTTATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:995979 original size:13 final size:13
Alignment explanation
Indices: 995961--995985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
995951 ACATAGGTGT
995961 TGTATCGATACAA
1 TGTATCGATACAA
995974 TGTATCGATACA
1 TGTATCGATACA
995986 TAAGTTTTGT
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:996122 original size:52 final size:52
Alignment explanation
Indices: 996077--996205 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
996067 CACTGATCTT
996077 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
** * * *
996129 TGTATCGATACATATAGGCAAATTTGTCTAGATGTATCAATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
996181 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
996206 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:999782 original size:22 final size:22
Alignment explanation
Indices: 999756--999835 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
999746 TCTTTAAAAG
*
999756 AGGTTGGTTCTCTTTTTTGGAA
1 AGGTTAGTTCTCTTTTTTGGAA
* * *
999778 AGGTTGGTTCTC-TTTGT-AATA
1 AGGTTAGTTCTCTTTTTTGGA-A
*
999799 AGGTTAGTTCTCTTTCTTGGAA
1 AGGTTAGTTCTCTTTTTTGGAA
999821 AGGTTAGTTCT-TTTT
1 AGGTTAGTTCTCTTTT
999836 GTGAAAAAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 19 0.40
22 27 0.56
23 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.24, T:0.50
Consensus pattern (22 bp):
AGGTTAGTTCTCTTTTTTGGAA
Found at i:999809 original size:43 final size:43
Alignment explanation
Indices: 999756--999837 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
999746 TCTTTAAAAG
* * *
999756 AGGTTGGTTCTCTTTTTTGGAAAGGTTGGTTCTCTTTGTAATA
1 AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTCTTTGTAATA
*
999799 AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTTTTTGT
1 AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTCTTTGT
999838 GAAAAAGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.16, C:0.10, G:0.24, T:0.50
Consensus pattern (43 bp):
AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTCTTTGTAATA
Found at i:999844 original size:22 final size:22
Alignment explanation
Indices: 999776--999844 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
999766 TCTTTTTTGG
* *
999776 AAAGGTTGGTTCTCTTTGT-AA
1 AAAGGTTAGTTCTTTTTGTGAA
* *
999797 TAAGGTTAGTTCTCTTTCT-TG-G
1 AAAGGTTAGTTCT-TTT-TGTGAA
999819 AAAGGTTAGTTCTTTTTGTGAA
1 AAAGGTTAGTTCTTTTTGTGAA
999841 AAAG
1 AAAG
999845 TTGTTTTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 19 0.51
23 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (22 bp):
AAAGGTTAGTTCTTTTTGTGAA
Found at i:1000796 original size:22 final size:22
Alignment explanation
Indices: 1000770--1000818 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1000760 GTTATGATAT
* *
1000770 ATGTACATATAGTTTTTGTTAG
1 ATGTACATATAATTTTTGCTAG
*
1000792 ATGTACATATAATTTTTGCTAT
1 ATGTACATATAATTTTTGCTAG
1000814 ATGTA
1 ATGTA
1000819 TAAATGCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (22 bp):
ATGTACATATAATTTTTGCTAG
Found at i:1001787 original size:21 final size:19
Alignment explanation
Indices: 1001720--1001789 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 19
1001710 TTATTGAGGA
*
1001720 AACCAACCTTTCACAAAGG
1 AACCAACCCTTCACAAAGG
**
1001739 AAACCAACCCTTTCATTAAGTG
1 -AACCAACCC-TTCACAAAG-G
*
1001761 AGCCAAGCCCTTCACAAAGAG
1 AACCAA-CCCTTCACAAAG-G
1001782 AACCAACC
1 AACCAACC
1001790 TTCCAAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 10 0.26
21 25 0.64
22 4 0.10
ACGTcount: A:0.40, C:0.33, G:0.11, T:0.16
Consensus pattern (19 bp):
AACCAACCCTTCACAAAGG
Found at i:1002386 original size:13 final size:13
Alignment explanation
Indices: 1002370--1002399 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1002360 ATACATTGTT
1002370 CATTGTATCGATA
1 CATTGTATCGATA
1002383 CATTGTATCGATA
1 CATTGTATCGATA
1002396 CATT
1 CATT
1002400 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1002419 original size:29 final size:29
Alignment explanation
Indices: 1002386--1002457 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
1002376 ATCGATACAT
*
1002386 TGTATCGATACATTCTGGGTTTACCCAGA
1 TGTATCGATACATTCTGGATTTACCCAGA
1002415 TGTATCGATACATTCTGGATTTACCCAGA
1 TGTATCGATACATTCTGGATTTACCCAGA
1002444 TGTATCGATACATT
1 TGTATCGATACATT
1002458 TTACAATGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (29 bp):
TGTATCGATACATTCTGGATTTACCCAGA
Found at i:1004862 original size:51 final size:51
Alignment explanation
Indices: 1004710--1004873 Score: 145
Period size: 51 Copynumber: 3.2 Consensus size: 51
1004700 ATTTTTCATC
* ** * *
1004710 TCGGGGATACTCCAA-TCCTGGTTCCATATCCAAAACATCAATTTTTCT-TAA
1 TCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACATCAATTTTT-TACAA
* * * ** * ***
1004761 TCGAGGATACT-CAACTCCGATTTTCTTTCTAAAGTATCGATTTACCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTACAA
1004811 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTACAA
**
1004862 TTAGGGATACTC
1 TCGGGGATACTC
1004874 TAACCCCGTT
Statistics
Matches: 85, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
50 31 0.36
51 54 0.64
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTACAA
Found at i:1004907 original size:28 final size:27
Alignment explanation
Indices: 1004867--1004937 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
1004857 TACAATTAGG
1004867 GATACTCTAACCCCGTTA-TTTCATCGGA
1 GATACTCTAACCCCGTTATTTTCA--GGA
*
1004895 GATACTCTAACCCCGTTATTTTCGAGGG
1 GATACTCTAACCCCGTTATTTTC-AGGA
1004923 GATACTCTAACCCCG
1 GATACTCTAACCCCG
1004938 GCTTTATATC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.88
29 4 0.10
30 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (27 bp):
GATACTCTAACCCCGTTATTTTCAGGA
Found at i:1005035 original size:28 final size:30
Alignment explanation
Indices: 1004971--1005045 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 30
1004961 TTTTTTCATA
1004971 ATCG-GGGG-TACTCCAACCCTGTTATTTC
1 ATCGAGGGGATACTCCAACCCTGTTATTTC
1004999 ATCGA--GGATACTCCAATCCC-GTTATTTC
1 ATCGAGGGGATACTCCAA-CCCTGTTATTTC
*
1005027 -T-GAGGGGATACGCCAACCC
1 ATCGAGGGGATACTCCAACCC
1005046 CAATTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
26 2 0.05
27 6 0.15
28 30 0.73
29 3 0.07
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (30 bp):
ATCGAGGGGATACTCCAACCCTGTTATTTC
Found at i:1005087 original size:51 final size:51
Alignment explanation
Indices: 1005030--1005148 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
1005020 TTATTTCTGA
* *
1005030 GGGGATACGCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAATACCAATTTTCCACAATC
* ** * * *
1005081 GGGGATACTCCAACTCTGATTTTATTTCCAAAATACCGATTTTCTATAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAATACCAATTTTCCACAATC
*
1005132 AGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1005149 GTTATTTTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAATACCAATTTTCCACAATC
Found at i:1005108 original size:110 final size:107
Alignment explanation
Indices: 1004813--1005094 Score: 307
Period size: 110 Copynumber: 2.6 Consensus size: 107
1004803 TACCACAATC
* * * * ** *
1004813 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTACAATTAGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCCAAC
* *
1004878 CCCGTTATTTCATCGGAGATACTCTAACCCCGTTATTTTCGA
66 CCTGTTATTTCATCGGAGATACTCCAACCCCGTTATTTTCGA
* ** * * * * *
1004920 GGGGATACTCTAACCCCGGCTTTATATCTAAAATATTGATCTTTTTTCATAATCGGGGGTACTCC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATA-TCA--ATTTTTCACAATCGGGGATACTCC
*
1004985 AACCCTGTTATTTCATC-GAGGATACTCCAATCCCGTTA-TTTCTGA
63 AACCCTGTTATTTCATCGGA-GATACTCCAACCCCGTTATTTTC-GA
* * * *
1005030 GGGGATACGCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCCAAC
1005095 TCTGATTTTA
Statistics
Matches: 140, Mismatches: 30, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
107 51 0.36
108 2 0.01
109 7 0.05
110 80 0.57
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTTTCACAATCGGGGATACTCCAAC
CCTGTTATTTCATCGGAGATACTCCAACCCCGTTATTTTCGA
Found at i:1017584 original size:1 final size:1
Alignment explanation
Indices: 1017580--1017664 Score: 71
Period size: 1 Copynumber: 85.0 Consensus size: 1
1017570 ATTCTTTTTC
* * * * * * * *
1017580 AAAAAAACAAAAAACAACAAAAAAAAACAAAAAAACAAAAAACAAAAAAACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
1017645 AACAAAACAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAA
1017665 GAGAAAAGAA
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:1017592 original size:8 final size:8
Alignment explanation
Indices: 1017579--1017663 Score: 100
Period size: 8 Copynumber: 10.0 Consensus size: 8
1017569 CATTCTTTTT
1017579 CAAAAAAA
1 CAAAAAAA
1017587 CAAAAAACAA
1 C-AAAAA-AA
1017597 CAAAAAAAAA
1 C--AAAAAAA
1017607 CAAAAAAA
1 CAAAAAAA
1017615 C-AAAAAA
1 CAAAAAAA
1017622 CAAAAAAA
1 CAAAAAAA
1017630 CAAAAAAA
1 CAAAAAAA
1017638 CAAAAAAAA
1 C-AAAAAAA
1017647 CAAAACAAA
1 CAAAA-AAA
*
1017656 GAAAAAAA
1 CAAAAAAA
1017664 AGAGAAAAGA
Statistics
Matches: 70, Mismatches: 1, Indels: 12
0.84 0.01 0.14
Matches are distributed among these distances:
7 7 0.10
8 31 0.44
9 20 0.29
10 6 0.09
11 6 0.09
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:1017606 original size:15 final size:14
Alignment explanation
Indices: 1017579--1017664 Score: 102
Period size: 15 Copynumber: 5.9 Consensus size: 14
1017569 CATTCTTTTT
1017579 CAAAAAAACAAAAAA
1 CAAAAAAA-AAAAAA
*
1017594 C-AACAAAAAAAAA
1 CAAAAAAAAAAAAA
1017607 CAAAAAAACAAAAAA
1 CAAAAAAA-AAAAAA
1017622 CAAAAAAACAAAAAAA
1 C-AAAAAA-AAAAAAA
*
1017638 CAAAAAAAACAAAA
1 CAAAAAAAAAAAAA
1017652 CAAAGAAAAAAAA
1 CAAA-AAAAAAAA
1017665 GAGAAAAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
13 7 0.11
14 20 0.32
15 21 0.34
16 13 0.21
17 1 0.02
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAAAAA
Found at i:1017610 original size:28 final size:27
Alignment explanation
Indices: 1017579--1017664 Score: 110
Period size: 23 Copynumber: 3.3 Consensus size: 27
1017569 CATTCTTTTT
1017579 CAAAAAAACAAAAAACAACAAAAAAAAA
1 CAAAAAAACAAAAAA-AACAAAAAAAAA
1017607 CAAAAAAAC--AAAAAAC--AAAAAAA
1 CAAAAAAACAAAAAAAACAAAAAAAAA
*
1017630 CAAAAAAACAAAAAAAACAAAACAAAGA
1 CAAAAAAACAAAAAAAACAAAA-AAAAA
1017658 -AAAAAAA
1 CAAAAAAA
1017665 GAGAAAAGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
23 16 0.31
25 10 0.19
26 4 0.08
27 9 0.17
28 13 0.25
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (27 bp):
CAAAAAAACAAAAAAAACAAAAAAAAA
Found at i:1017671 original size:25 final size:24
Alignment explanation
Indices: 1017580--1017664 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 24
1017570 ATTCTTTTTC
1017580 AAAAAAACAAAAAACAACAAAAAAAA
1 AAAAAAACAAAAAA-AA-AAAAAAAA
* *
1017606 ACAAAAAA-ACAAAAAACAAAAAAAC
1 A-AAAAAACA-AAAAAAAAAAAAAAA
1017631 AAAAAAACAAAAAAAACAAAACAAAGA
1 AAAAAAACAAAAAAAA-AAAA-AAA-A
1017658 AAAAAAA
1 AAAAAAA
1017665 GAGAAAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
24 12 0.24
25 13 0.27
26 6 0.12
27 18 0.37
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAAAAAAAAAAAAAAA
Found at i:1018750 original size:60 final size:59
Alignment explanation
Indices: 1018636--1019217 Score: 574
Period size: 60 Copynumber: 9.6 Consensus size: 59
1018626 CTCCTTTCAC
* * * *
1018636 CTTCAGTCCTAAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1018695 CTTCCCAGTCCTCAAAGAGCAGGACGCCGTCGCC-TTCAAAGCCCACACAAGTTGGTGGCA
1 CTT--CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1018755 CCTTCAGTCCTCAAAGAGTAGGACGCCTTCACCTTTCAAAGCCCGCACAAGCTAGTGGCA
1 -CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1018815 CCTTCAGTCCTTAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACGAGTTAGTGGCA
1 -CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1018875 CTTCCAATCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTT-CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1018935 CCTTCAGTCCTCAAAGAGCAGGACACCTTCACCTTTCAAAGCCCACACAAGCTGATGGCA
1 -CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1018995 CTTTTCTAGTCCTCGAAGGGCAGGACACCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 C--TTC-AGTCCTCAAAGAGCAGGACGCC--TTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * * * *
1019059 CCTCTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTCTCAAAGTCCACACGAGTTGGTGGCA
1 -CT-TCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT-TCAAAGCCCACACAAGTTGGTGGCA
* ** * ** *
1019121 CATTTTAGTCCTCAAAGAGCAGGAC-ATTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCA
1 C--TTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1019181 TTTTTTAGTCCTCGAAGAGCAGGATGCCTTTTCCTTT
1 --CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
1019218 TCTCCTTTAT
Statistics
Matches: 445, Mismatches: 59, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
59 33 0.07
60 243 0.55
61 55 0.12
62 63 0.14
63 21 0.05
64 29 0.07
65 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (59 bp):
CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1018861 original size:180 final size:180
Alignment explanation
Indices: 1018633--1019146 Score: 672
Period size: 180 Copynumber: 2.8 Consensus size: 180
1018623 TTTCTCCTTT
*
1018633 CACCTTCAGTCCTAAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACGAGTTGGTGGCACTT
1 CACCTTCAGTCCTAAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACGAGTTGGTGGCACTT
*
1018698 CCCAGTCCTCAAAGAGCAGGACGCCGTCGCCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGT
66 CCCAGTCCTCAAAGAGCAGGACGCCTTCGCCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
1018763 CCTCAAAGAGTAGGACGCCTTCACCTTTCAAAGCCCGCACAAGCT-AGTGG
131 CCTCAAAGAGCAGGACACCTTCACCTTTCAAAGCCCACACAAGCTGA-TGG
* * *
1018813 CACCTTCAGTCCTTAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACGAGTTAGTGGCACTT
1 CACCTTCAGTCCTAAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACGAGTTGGTGGCACTT
*
1018878 -CCAATCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
66 CCCAGTCCTCAAAGAGCAGGACGCCTTCGCC-TTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
1018942 TCCTCAAAGAGCAGGACACCTTCACCTTTCAAAGCCCACACAAGCTGATGG
130 TCCTCAAAGAGCAGGACACCTTCACCTTTCAAAGCCCACACAAGCTGATGG
* ** * * * * *
1018993 CACTTTTCTAGTCCTCGAAGGGCAGGACACCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
1 CAC-CTTC-AGTCCTAAAAGAGCAGGACGCC-TTCTCCTTTT-AAAGCCCACACGAGTTGGTGGC
* ** ** ** * * *
1019058 ACCTCTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTCTCAAAGTCCACACGAGTTGGTGGCACA
62 ACTTCCCAGTCCTCAAAGAGCAGGACGCC-TTCGCCT-TCAAAGCCCACACAAGTTGGTGGCAC-
* *
1019123 TTTTAGTCCTCAAAGAGCAGGACA
124 CTTCAGTCCTCAAAGAGCAGGACA
1019147 TTTTTTTTTT
Statistics
Matches: 292, Mismatches: 32, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
179 28 0.10
180 143 0.49
181 4 0.01
182 17 0.06
183 8 0.03
184 23 0.08
185 20 0.07
186 27 0.09
187 22 0.08
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (180 bp):
CACCTTCAGTCCTAAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACGAGTTGGTGGCACTT
CCCAGTCCTCAAAGAGCAGGACGCCTTCGCCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGT
CCTCAAAGAGCAGGACACCTTCACCTTTCAAAGCCCACACAAGCTGATGG
Found at i:1019374 original size:42 final size:43
Alignment explanation
Indices: 1019209--1019429 Score: 173
Period size: 42 Copynumber: 5.0 Consensus size: 43
1019199 GCAGGATGCC
* * * * *
1019209 TTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACATA-TTTCA
1 TTTTCCTTTTTTCTTTTGTCCTCAAAAAGCAGGACACACTTT-A
* * *
1019252 -TTTCCTTCTTTTCCCTTTTTTGTCCTCAAAGAGCAGGACGCACTTCA
1 TTTTCCTT-TTTT--C--TTTTGTCCTCAAAAAGCAGGACACACTTTA
* *
1019299 -TTTCCTTATTTTCTCTTTTGTCCTCAAAGAGCAGGGCACACTTTA
1 TTTTCC-T-TTTT-TCTTTTGTCCTCAAAAAGCAGGACACACTTTA
* *
1019344 TTTTCC-TTTTTCTTTTGTCCTCAAAAAGCAGGACGCA-TTTCG
1 TTTTCCTTTTTTCTTTTGTCCTCAAAAAGCAGGACACACTTT-A
* *
1019386 TTTTCCTTTTTTCCTTTGTCCTCGAAAAGCAGGACGCACACTTT
1 TTTTCCTTTTTTCTTTTGTCCTCAAAAAGCAGGA--CACACTTT
1019430 TTCACTTTGT
Statistics
Matches: 147, Mismatches: 16, Indels: 27
0.77 0.08 0.14
Matches are distributed among these distances:
41 3 0.02
42 37 0.25
43 32 0.22
45 31 0.21
46 8 0.05
47 28 0.19
48 6 0.04
49 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (43 bp):
TTTTCCTTTTTTCTTTTGTCCTCAAAAAGCAGGACACACTTTA
Found at i:1019378 original size:87 final size:86
Alignment explanation
Indices: 1019269--1019429 Score: 229
Period size: 87 Copynumber: 1.8 Consensus size: 86
1019259 CTTTTCCCTT
*
1019269 TTTTGTCCTCAAAGAGCAGGACGCACTTC-ATTTCCTTATTTTCTCTTTTGTCCTC-AAAGAGCA
1 TTTTGTCCTCAAAAAGCAGGACGCACTTCGATTTCCTT-TTTTC-C-TTTGTCCTCGAAA-AGCA
1019332 GG-GCACACTTTATTTTCCTTTTTC
62 GGAGCACACTTTATTTTCCTTTTTC
* *
1019356 TTTTGTCCTCAAAAAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTTGTCCTCGAAAAGCAGGAC
1 TTTTGTCCTCAAAAAGCAGGACGCACTTCGATTTCCTTTTTTCCTTTGTCCTCGAAAAGCAGGA-
1019421 GCACACTTT
65 GCACACTTT
1019430 TTCACTTTGT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
85 15 0.22
86 4 0.06
87 41 0.61
88 7 0.10
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.39
Consensus pattern (86 bp):
TTTTGTCCTCAAAAAGCAGGACGCACTTCGATTTCCTTTTTTCCTTTGTCCTCGAAAAGCAGGAG
CACACTTTATTTTCCTTTTTC
Found at i:1019414 original size:43 final size:42
Alignment explanation
Indices: 1019208--1019423 Score: 211
Period size: 47 Copynumber: 4.9 Consensus size: 42
1019198 AGCAGGATGC
* * **
1019208 CTTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACATATTT
1 CTTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTT
* *
1019250 CATTTCCTTCTTTTCCCTTTTTTGTCCTCAAAGAGCAGGACGCACTT
1 CTTTTCCTT-TTTT-CC---TTTGTCCTCAAAGAGCAGGACGCATTT
* * *
1019297 CATTTCCTTATTTTCTCTTTTGTCCTCAAAGAGCAGGGCACACTTT
1 CTTTTCCTT-TTTTC-C-TTTGTCCTCAAAGAGCAGGACGCA-TTT
* * *
1019343 ATTTTCC-TTTTTCTTTTGTCCTCAAAAAGCAGGACGCATTT
1 CTTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTT
1019384 CGTTTTCCTTTTTTCCTTTGTCCTCGAAA-AGCAGGACGCA
1 C-TTTTCCTTTTTTCCTTTGTCCTC-AAAGAGCAGGACGCA
1019424 CACTTTTTCA
Statistics
Matches: 146, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.02
42 35 0.24
43 29 0.20
44 10 0.07
45 24 0.16
46 8 0.05
47 37 0.25
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.41
Consensus pattern (42 bp):
CTTTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTT
Found at i:1019519 original size:40 final size:41
Alignment explanation
Indices: 1019428--1019526 Score: 139
Period size: 41 Copynumber: 2.4 Consensus size: 41
1019418 GACGCACACT
*
1019428 TTTTCACTTTGTCCTCAAGAAGCAAGACATTTTCCTATTCTT
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACATTTTCCTATTCTC
* *
1019470 TTTTCCTTTGTCCTCAAGGAGCAAGACCTATTT-C-ATTCTC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACAT-TTTCCTATTCTC
1019510 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
1019527 AAAGTGGGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 22 0.42
41 23 0.43
42 8 0.15
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.43
Consensus pattern (41 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACATTTTCCTATTCTC
Found at i:1020146 original size:20 final size:20
Alignment explanation
Indices: 1020138--1020175 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1020128 ATACATTTTG
1020138 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
1020158 CATTGTATCGATACATTG
1 CATTGTATCGATACATTG
1020176 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:1020174 original size:13 final size:13
Alignment explanation
Indices: 1020158--1020187 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1020148 ATACATTGCT
1020158 CATTGTATCGATA
1 CATTGTATCGATA
1020171 CATTGTATCGATA
1 CATTGTATCGATA
1020184 CATT
1 CATT
1020188 TTGGATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1022594 original size:51 final size:51
Alignment explanation
Indices: 1022539--1022682 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 51
1022529 TCTCGGTTCC
** *
1022539 ATTTCCAAAACATCAATTTTTCTTAATC-AGGGATACTCTAACTCTGATTTT
1 ATTTCCAAAACATCAATTTTTCGCAATCGA-GGATACTCCAACTCTGATTTT
* * * **
1022590 ATTTCTAAAGCATCGATTTACCGCAATCGAGGATACTCCAACTCTGATTTT
1 ATTTCCAAAACATCAATTTTTCGCAATCGAGGATACTCCAACTCTGATTTT
* * *
1022641 ATTTCCAAAACA-CTAATTTTTCACAATTGGGGATACTCCAAC
1 ATTTCCAAAACATC-AATTTTTCGCAATCGAGGATACTCCAAC
1022683 CCCGTTATTT
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
50 1 0.01
51 73 0.97
52 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.35
Consensus pattern (51 bp):
ATTTCCAAAACATCAATTTTTCGCAATCGAGGATACTCCAACTCTGATTTT
Found at i:1022813 original size:28 final size:28
Alignment explanation
Indices: 1022751--1022820 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
1022741 TTTCATAATC
* *
1022751 GGGGGTACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCATA
* * *
1022779 GGAGATACTCCAATCCCGTTATTT-TTAA
1 GGGGATACTCCAACCCCGTTATTTCAT-A
1022807 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1022821 TTCGATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCATA
Found at i:1022866 original size:51 final size:51
Alignment explanation
Indices: 1022807--1022922 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
1022797 TTATTTTTAA
* *
1022807 GGGGATACTCCAACTTCGATTTTAATTCTAAAATACCAATTTTCTACAATC
1 GGGGATACTCCAACTCCGATTTTAATTCCAAAATACCAATTTTCTACAATC
* ** *
1022858 GGGGATACTCCAACTCCGATTTTATTTCCAAAATACTGATTTTCTATAATC
1 GGGGATACTCCAACTCCGATTTTAATTCCAAAATACCAATTTTCTACAATC
*
1022909 AGGGATACTCCAAC
1 GGGGATACTCCAAC
1022923 CCCGTTATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTAATTCCAAAATACCAATTTTCTACAATC
Found at i:1024615 original size:32 final size:32
Alignment explanation
Indices: 1024570--1024637 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
1024560 ATGCATTTGA
* *
1024570 AATTCTAGTCGTTGGGCTCAATGTATCGATAC
1 AATTATAGCCGTTGGGCTCAATGTATCGATAC
*
1024602 AATTATAGCCGTTGGGCTTAATGTATCGATAC
1 AATTATAGCCGTTGGGCTCAATGTATCGATAC
1024634 AATT
1 AATT
1024638 TACCATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (32 bp):
AATTATAGCCGTTGGGCTCAATGTATCGATAC
Found at i:1027313 original size:19 final size:19
Alignment explanation
Indices: 1027270--1027306 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1027260 ATATAGTTGA
1027270 AATGTATCAATACAATTTT
1 AATGTATCAATACAATTTT
*
1027289 AATGTATCGATACAATTT
1 AATGTATCAATACAATTT
1027307 CTTTGTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (19 bp):
AATGTATCAATACAATTTT
Found at i:1031770 original size:12 final size:12
Alignment explanation
Indices: 1031755--1031779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1031745 CGAATCAACC
1031755 TCATCATCATCT
1 TCATCATCATCT
1031767 TCATCATCATCT
1 TCATCATCATCT
1031779 T
1 T
1031780 TAATGGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:1032932 original size:34 final size:33
Alignment explanation
Indices: 1032879--1032943 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
1032869 CCTTACAACA
*
1032879 CTATCTTTTCGAAGGCTAAGATAAAACCTCTTC
1 CTATCTTTTCAAAGGCTAAGATAAAACCTCTTC
*
1032912 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 CTATCTTTT-CAAAGGCTAAGATAAAACCTCT
1032944 CAATCACTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (33 bp):
CTATCTTTTCAAAGGCTAAGATAAAACCTCTTC
Found at i:1033597 original size:32 final size:33
Alignment explanation
Indices: 1033556--1033619 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1033546 CATTTTGTGT
1033556 TGTATCGATACAAAG-AACAAGTATCGATACAA
1 TGTATCGATACAAAGCAACAAGTATCGATACAA
* * *
1033588 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACAAAGCAACAAGTATCGATACA
1033620 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (33 bp):
TGTATCGATACAAAGCAACAAGTATCGATACAA
Found at i:1034635 original size:13 final size:13
Alignment explanation
Indices: 1034617--1034641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1034607 ATTACTCACA
1034617 TGTATCGATACAT
1 TGTATCGATACAT
1034630 TGTATCGATACA
1 TGTATCGATACA
1034642 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:1034706 original size:52 final size:52
Alignment explanation
Indices: 1034650--1034769 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
1034640 CACTGATCTT
*
1034650 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* *
1034702 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
1034754 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1034770 AACAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:1041684 original size:14 final size:12
Alignment explanation
Indices: 1041667--1041700 Score: 50
Period size: 12 Copynumber: 2.7 Consensus size: 12
1041657 AAAGGTGATG
1041667 AAAAAAAAACACAC
1 AAAAAAAAA-A-AC
1041681 AAAAAAAAAAAC
1 AAAAAAAAAAAC
1041693 AAAAAAAA
1 AAAAAAAA
1041701 TGTAAAGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.50
13 1 0.05
14 9 0.45
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:1041943 original size:1 final size:1
Alignment explanation
Indices: 1041937--1041991 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
1041927 GTTCTTTTCC
* * * * * *
1041937 AAAAAAAAAAACAAAACAAAAAAGAAAAAAAAACAAAAAAAAAAGAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1041992 GAACAACCCC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:1041958 original size:17 final size:16
Alignment explanation
Indices: 1041936--1041980 Score: 72
Period size: 17 Copynumber: 2.7 Consensus size: 16
1041926 TGTTCTTTTC
1041936 CAAAAAAAAAAACAAAA
1 CAAAAAAAAAAA-AAAA
1041953 CAAAAAAGAAAAAAAAA
1 CAAAAAA-AAAAAAAAA
1041970 CAAAAAAAAAA
1 CAAAAAAAAAA
1041981 GAGAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 18 0.67
18 5 0.19
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:1041966 original size:21 final size:23
Alignment explanation
Indices: 1041939--1041991 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
1041929 TCTTTTCCAA
*
1041939 AAAAAAAAACAAAACAAAAA-AG
1 AAAAAAAAACAAAAAAAAAAGAG
1041961 AAAAAAAAACAAAAAAAAAAGAG
1 AAAAAAAAACAAAAAAAAAAGAG
1041984 AAAAAAAA
1 AAAAAAAA
1041992 GAACAACCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (23 bp):
AAAAAAAAACAAAAAAAAAAGAG
Found at i:1041968 original size:23 final size:24
Alignment explanation
Indices: 1041938--1041997 Score: 88
Period size: 22 Copynumber: 2.5 Consensus size: 24
1041928 TTCTTTTCCA
*
1041938 AAAAAAAAAACAAAACAAAAA-AG
1 AAAAAAAAAACAAAAAAAAAAGAG
1041961 -AAAAAAAAACAAAAAAAAAAGAG
1 AAAAAAAAAACAAAAAAAAAAGAG
1041984 AAAAAAAAGAACAA
1 AAAAAAAA-AACAA
1041998 CCCCTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 19 0.58
23 2 0.06
24 7 0.21
25 5 0.15
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAAAAGAG
Found at i:1041992 original size:11 final size:11
Alignment explanation
Indices: 1041938--1041994 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
1041928 TTCTTTTCCA
*
1041938 AAAAAAAAAAC
1 AAAAAAAAAAG
1041949 AAAACAAAAAAG
1 AAAA-AAAAAAG
*
1041961 -AAAAAAAAAC
1 AAAAAAAAAAG
1041971 AAAAAAAAAAG
1 AAAAAAAAAAG
*
1041982 AGAAAAAAAAG
1 AAAAAAAAAAG
1041993 AA
1 AA
1041995 CAACCCCTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 6 0.15
11 27 0.69
12 6 0.15
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:1042289 original size:20 final size:20
Alignment explanation
Indices: 1042237--1042359 Score: 149
Period size: 21 Copynumber: 6.0 Consensus size: 20
1042227 TAAAAAAAAA
1042237 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
1042256 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
1042277 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
1042297 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
1042318 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
*
1042338 ATTCTACAAATGTATTGATAC
1 ATTC-ACAAATGTATCGATAC
1042359 A
1 A
1042360 GGGTCCCAAC
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.03
20 35 0.40
21 50 0.57
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:1042359 original size:41 final size:41
Alignment explanation
Indices: 1042237--1042340 Score: 201
Period size: 41 Copynumber: 2.6 Consensus size: 41
1042227 TAAAAAAAAA
1042237 ATTC-CAAATGTATCGATACATTTGTAGAATGTATCGATAC
1 ATTCACAAATGTATCGATACATTTGTAGAATGTATCGATAC
1042277 ATTCACAAATGTATCGATACATTTGTAGAATGTATCGATAC
1 ATTCACAAATGTATCGATACATTTGTAGAATGTATCGATAC
1042318 ATTCACAAATGTATCGATACATT
1 ATTCACAAATGTATCGATACATT
1042341 CTACAAATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.06
41 59 0.94
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (41 bp):
ATTCACAAATGTATCGATACATTTGTAGAATGTATCGATAC
Found at i:1042419 original size:19 final size:19
Alignment explanation
Indices: 1042395--1042462 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1042385 AATTCAACGA
1042395 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1042414 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1042429 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1042446 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1042463 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1042433 original size:32 final size:32
Alignment explanation
Indices: 1042397--1042459 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1042387 TTCAACGATT
*
1042397 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1042429 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1042460 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1042434 original size:13 final size:13
Alignment explanation
Indices: 1042416--1042440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1042406 ACATAAGTTT
1042416 TGTATCGATACAA
1 TGTATCGATACAA
1042429 TGTATCGATACA
1 TGTATCGATACA
1042441 TAAGTATTGT
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:1042520 original size:13 final size:13
Alignment explanation
Indices: 1042502--1042527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1042492 CATTTTTCTG
1042502 TGTATCGATACAT
1 TGTATCGATACAT
1042515 TGTATCGATACAT
1 TGTATCGATACAT
1042528 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1042524 original size:33 final size:33
Alignment explanation
Indices: 1042482--1042548 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1042472 GCCAAGGAAA
***
1042482 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1042515 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1042548 T
1 T
1042549 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1045088 original size:52 final size:51
Alignment explanation
Indices: 1045015--1045184 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
1045005 TTATTTTCGA
*
1045015 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
1045067 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
1045119 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
1045171 GAGGATACTCCAAC
1 GGGGATACTCCAAC
1045185 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:1045204 original size:28 final size:28
Alignment explanation
Indices: 1045168--1045244 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1045158 ATTTTTCACA
* * *
1045168 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1045196 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1045224 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1045245 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1045311 original size:107 final size:107
Alignment explanation
Indices: 1044921--1045323 Score: 277
Period size: 107 Copynumber: 3.8 Consensus size: 107
1044911 TATTCTAACT
* * * * *
1044921 CCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCAT
1 CCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCCAACCCCGTTATTTAT
* * *
1044986 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACT
64 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACC
** * * * * * * *
1045030 CCGGTTTTATCGTT---AAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGT-TTTA
1 CCGACTTTAT--TTCCAAAAATACCAATTTCT-CACAATCGAGGATACTCCAACCCCGTTATTTA
***** * * ** * * *
1045091 TTTTCAAAACGCCAATTTTCCTTTA-AT-C--GGGGATACTCCAACT
63 TCGGGGATACTCCAA--CCCCGTTACTTCCGAGGGGATACTCCAACC
* * *
1045134 CCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATC
1 CCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTT-ATC
1045199 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACC
65 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACC
* * *** * * *
1045242 CCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATTT-TCG
1 CCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTATCG
*
1045305 AAGGGATACTCCAATCCCG
66 --GGGATACTCCAACCCCG
1045324 ATTTTTTTTA
Statistics
Matches: 227, Mismatches: 51, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 2 0.01
104 51 0.22
105 20 0.09
106 22 0.10
107 95 0.42
108 26 0.11
109 9 0.04
111 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (107 bp):
CCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTATCG
GGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACC
Found at i:1047280 original size:31 final size:30
Alignment explanation
Indices: 1047242--1047391 Score: 160
Period size: 31 Copynumber: 4.9 Consensus size: 30
1047232 ATACCTTTTT
*
1047242 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
1047273 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATC-TTTGC-TC
1047305 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
* *
1047335 AAAGTCCACGACTCAGTGGCATGTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
* * *
1047366 AAAGCCCACAACTTC-GTGGCACCTTT
1 AAAGTCCACGAC-TCAGTGGCATCTTT
1047392 TCCTTTAAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
30 30 0.29
31 48 0.47
32 25 0.24
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:1047341 original size:30 final size:31
Alignment explanation
Indices: 1047242--1047495 Score: 196
Period size: 34 Copynumber: 8.0 Consensus size: 31
1047232 ATACCTTTTT
* *
1047242 AAAGTCCACGACTCAGTGGCAATCTCTGC-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTTC
*
1047273 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-CTTC
1047305 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTTC
*
1047335 AAAGTCCACGACTCAGTGGCATGTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
* * * *
1047366 AAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
1 AAAGTCCACGAC-TCAGTGGCATCTTTT-CTTC
* * * *
1047398 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTT-TTC--TTC
* * * *
1047432 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTT-TTC--TTC
* * *
1047466 AAAGCCCACAACTCCGTGGCA-CTTTT-TTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1047495 A
1 A
1047496 TCTTTAAGTC
Statistics
Matches: 202, Mismatches: 10, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
29 4 0.02
30 30 0.15
31 52 0.26
32 54 0.27
33 5 0.02
34 57 0.28
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTC
Found at i:1047355 original size:62 final size:63
Alignment explanation
Indices: 1047239--1047362 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 63
1047229 CAAATACCTT
1047239 TTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
* *
1047302 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATGTTTTC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTG-CTCAAAGTCCACGACTCAGTGGCATCTTTTC
1047363 TTCAAAGCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 3 0.05
62 32 0.55
63 23 0.40
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (63 bp):
TTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
Found at i:1047441 original size:34 final size:32
Alignment explanation
Indices: 1047273--1047924 Score: 599
Period size: 34 Copynumber: 19.8 Consensus size: 32
1047263 ATCTCTGCTC
* * * * *
1047273 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* * * * * *
1047305 AAAGTCCACGACTCAGTGGCA--TTTTGTCTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* * * ** *
1047335 AAAGTCCACGACTCAGTGGCATGTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* *
1047366 AAAGCCCACAACTTCGTGGCACCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
1047398 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTT-TTCTTTT
1047431 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTT-TTCTTTT
*
1047465 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTC-T-TTT
*
1047501 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACC-TTTTC-TTTT
1047534 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACC-TTTTCT-TTT
*
1047568 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTC-TTTT
*
1047603 AAAGCCCACAACTCCGTGGCACTTTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC--CTTTT--CTTTT
*
1047639 CAAAGCCCACAACTTCGTGGCACC----CTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
* * *
1047668 -AAGTCCACGACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTCTTTT
*
1047700 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTCTTTT
*
1047733 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTCTTTT
* *
1047766 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTT-CTTTT
*
1047800 -AAGCCCACAACTCCGTGGCA-CTTTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCTT--TT
*
1047832 CTAAG-CCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACC-TTTTC-TTTT
* *
1047866 AAAGCCCATAACTCTGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTT-TTCTTTT
* * * *
1047899 TAAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
1047925 CACCCTCTCT
Statistics
Matches: 539, Mismatches: 48, Indels: 66
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.03
28 1 0.00
29 5 0.01
30 28 0.05
31 29 0.05
32 57 0.11
33 163 0.30
34 164 0.30
35 42 0.08
36 10 0.02
37 22 0.04
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCTTTT
Found at i:1047714 original size:33 final size:33
Alignment explanation
Indices: 1047273--1047924 Score: 598
Period size: 33 Copynumber: 19.8 Consensus size: 33
1047263 ATCTCTGCTC
* * *
1047273 AAAGTCCACGACTCAGTGGCA-TCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
* * * *
1047305 AAAGTCCACGACTCAGTGGCA-T-TTTGT-C-TC
1 AAAGCCCACAACTCCGTGGCACTCTTT-TCCTTT
* * * * *
1047335 AAAGTCCACGACTCAGTGGCA-TGTTTT-CTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
*
1047366 AAAGCCCACAACTTCGTGGCAC-CTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
*
1047398 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTT
*
1047431 CAAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTT
*
1047465 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTC--CTTT
* *
1047501 -AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTC-CTTT
*
1047534 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTC-CTTT
* * *
1047568 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTC-CTTT
*
1047603 AAAGCCCACAACTCCGTGGCACTTTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-TCTTTT-CC-TTT
*
1047639 CAAAGCCCACAACTTCGTGGCA--C----CCTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
* * *
1047667 TAAGTCCACGACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1047700 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1047733 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
*
1047766 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTT-T
*
1047800 -AAGCCCACAACTCCGTGGCACTTTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-TCTTTTCCTT-T
*
1047834 -AAG-CCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTC-CTTT
* * *
1047866 AAAGCCCATAACTCTGTGGCAC-CTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTT
* * *
1047899 TAAGTCCACAACTTCGTGGCA-TCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
1047925 CACCCTCTCT
Statistics
Matches: 546, Mismatches: 43, Indels: 62
0.84 0.07 0.10
Matches are distributed among these distances:
27 17 0.03
28 3 0.01
29 3 0.01
30 25 0.05
31 30 0.05
32 57 0.10
33 176 0.32
34 170 0.31
35 38 0.07
36 7 0.01
37 20 0.04
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
Found at i:1048029 original size:49 final size:48
Alignment explanation
Indices: 1047965--1048793 Score: 981
Period size: 49 Copynumber: 17.8 Consensus size: 48
1047955 GCAACCCTTC
* * *
1047965 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTT
*
1048014 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG---C--ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
*
1048057 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
*
1048100 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
1048143 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTT
*
1048192 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG---C--ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
*
1048235 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTT
1048284 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* *
1048333 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG---C--ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
1048376 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTT
* * * *
1048425 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* * * * * *
1048474 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
1048523 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * * * *
1048566 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
*
1048615 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
1048663 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACCTT-G-A-C--ACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
1048706 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT--ATCTT
**
1048758 TAAGTTTAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1048794 ACATCCTTTT
Statistics
Matches: 685, Mismatches: 58, Indels: 71
0.84 0.07 0.09
Matches are distributed among these distances:
43 277 0.40
44 3 0.00
45 3 0.00
46 7 0.01
47 1 0.00
48 44 0.06
49 314 0.46
52 36 0.05
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
Found at i:1048236 original size:92 final size:92
Alignment explanation
Indices: 1047965--1048798 Score: 941
Period size: 92 Copynumber: 9.0 Consensus size: 92
1047955 GCAACCCTTC
* * *
1047965 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
1048030 GGCCTTGACTCAGCACATTGGCATCTT
66 GGCCTTGAATCAGCACATTGGCATCTT
*
1048057 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-----CTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
1048116 GGCCTTGACTCAGCACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCATCTT
* *
1048143 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
1048208 GGCCTTGACTCAGCACATTGGCATCTT
66 GGCCTTGAATCAGCACATTGGCATCTT
*
1048235 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1048300 GGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCACATTGG------CATCTT
* * *
1048333 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG---C---ATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
1048392 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCACATTGG---C---ATCTT
* * * * * * * * *
1048425 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCCCGATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
1048490 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCACATTGG------CATCTT
* * * *
1048523 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGCCCGATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
1048582 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCACATTGG------CATCTT
*
1048615 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * *
1048679 GGCCTTGAATCAGCACCTTGACACCTT
66 GGCCTTGAATCAGCACATTGGCATCTT
* * **
1048706 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTTAATGTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTTTAAGTCCAATGTA
*
1048771 GCTGGCCTTGAATCAGCACATTGACATC
63 GCTGGCCTTGAATCAGCACATTGGCATC
1048799 CTTTTTCTCA
Statistics
Matches: 664, Mismatches: 45, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
86 81 0.12
87 1 0.00
89 2 0.00
91 45 0.07
92 332 0.50
93 2 0.00
95 44 0.07
97 34 0.05
98 121 0.18
101 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCATCTT
Found at i:1048773 original size:52 final size:53
Alignment explanation
Indices: 1048703--1048856 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
1048693 ACCTTGACAC
*
1048703 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
1048755 CTTTAAGTTTAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
1048810 CTTTAAGCCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1048857 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 37 0.44
53 5 0.06
54 6 0.07
55 36 0.43
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (53 bp):
CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1049829 original size:13 final size:13
Alignment explanation
Indices: 1049811--1049835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1049801 ATTACTCACA
1049811 TGTATCGATACAT
1 TGTATCGATACAT
1049824 TGTATCGATACA
1 TGTATCGATACA
1049836 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:1049900 original size:52 final size:52
Alignment explanation
Indices: 1049844--1049963 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
1049834 CACTGATCTT
*
1049844 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1049896 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1049948 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1049964 AACAACTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1053175 original size:19 final size:19
Alignment explanation
Indices: 1053147--1053202 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1053137 TGTATCGATA
* *
1053147 CATTGCATCGATACATGTT
1 CATTGTATCGATACATGCT
*
1053166 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
*
1053185 CAATTGTATCAATACATG
1 C-ATTGTATCGATACATG
1053203 AAAGTGGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:1053256 original size:20 final size:20
Alignment explanation
Indices: 1053231--1053280 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
1053221 TTAAGCCAAA
1053231 TGTATCGATACATGAAGAAC
1 TGTATCGATACATGAAGAAC
1053251 TGTATCGATACATGAAGAAC
1 TGTATCGATACATGAAGAAC
1053271 TGTATCGATA
1 TGTATCGATA
1053281 TAGTATGCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAC
Found at i:1058040 original size:16 final size:16
Alignment explanation
Indices: 1058016--1058047 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1058006 AAAGGCTTTC
*
1058016 AAAATTTTTAATAGAA
1 AAAAGTTTTAATAGAA
1058032 AAAAGTTTTAATAGAA
1 AAAAGTTTTAATAGAA
1058048 GAAATGTTGA
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:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:1059481 original size:13 final size:13
Alignment explanation
Indices: 1059463--1059502 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1059453 ACAATGTTCT
*
1059463 TTGTATCAATACA
1 TTGTATCGATACA
*
1059476 TTGTATTGATACA
1 TTGTATCGATACA
*
1059489 ATGTATCGATACA
1 TTGTATCGATACA
1059502 T
1 T
1059503 GGGTTACTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1062094 original size:20 final size:19
Alignment explanation
Indices: 1062040--1062094 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1062030 TGTATCGATA
*
1062040 CATTGTATCAATACATGTT
1 CATTGTATCAATACATATT
* **
1062059 CATTATATTGATACATATT
1 CATTGTATCAATACATATT
1062078 CAATTGTATCAATACAT
1 C-ATTGTATCAATACAT
1062095 GAAAGTGGCA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (19 bp):
CATTGTATCAATACATATT
Found at i:1063014 original size:22 final size:22
Alignment explanation
Indices: 1062946--1063014 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
1062936 ACACTATGAC
* * *
1062946 TATCACAGTAATAATATGTAGA
1 TATCACAATAATAGTATGTACA
* * **
1062968 TATCATAATAATAGCACATACA
1 TATCACAATAATAGTATGTACA
*
1062990 TATCACAATAATAGTATGTATA
1 TATCACAATAATAGTATGTACA
1063012 TAT
1 TAT
1063015 AACTTTATCT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (22 bp):
TATCACAATAATAGTATGTACA
Found at i:1066715 original size:21 final size:20
Alignment explanation
Indices: 1066691--1066737 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1066681 TTCTATGATT
*
1066691 TGTATCGATATAATTAGTGAA
1 TGTATCGATA-AATAAGTGAA
* *
1066712 TGTATTGATACATAAGTGAA
1 TGTATCGATAAATAAGTGAA
1066732 TGTATC
1 TGTATC
1066738 AATACATGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATAAATAAGTGAA
Found at i:1066742 original size:20 final size:20
Alignment explanation
Indices: 1066706--1066744 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1066696 CGATATAATT
**
1066706 AGTGAATGTATTGATACATA
1 AGTGAATGTATCAATACATA
1066726 AGTGAATGTATCAATACAT
1 AGTGAATGTATCAATACAT
1066745 GTCTCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (20 bp):
AGTGAATGTATCAATACATA
Found at i:1074828 original size:24 final size:23
Alignment explanation
Indices: 1074801--1074850 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
1074791 AACATTGTAG
1074801 TTTT-TTTGGTTTCATTTTTAAAAA
1 TTTTCTTT-GTTT-ATTTTTAAAAA
*
1074825 TTTTCGTTTGTTTATTTTTTAAAA
1 TTTTC-TTTGTTTATTTTTAAAAA
1074849 TT
1 TT
1074851 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 16 0.70
25 4 0.17
26 3 0.13
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.66
Consensus pattern (23 bp):
TTTTCTTTGTTTATTTTTAAAAA
Found at i:1075301 original size:12 final size:11
Alignment explanation
Indices: 1075276--1075315 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1075266 GGTTCAACTT
1075276 AAAAAAGAAA-
1 AAAAAAGAAAG
1075286 AAAAAAGGAAAG
1 AAAAAA-GAAAG
1075298 AAAAAAAGAAAG
1 -AAAAAAGAAAG
1075310 AAAAAA
1 AAAAAA
1075316 ATTATGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.22
11 10 0.37
12 5 0.19
13 6 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1075316 original size:12 final size:12
Alignment explanation
Indices: 1075276--1075316 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
1075266 GGTTCAACTT
1075276 AAAAAAGAAA-A
1 AAAAAAGAAAGA
*
1075287 AAAAAGGAAAGA
1 AAAAAAGAAAGA
1075299 AAAAAAGAAAGA
1 AAAAAAGAAAGA
1075311 AAAAAA
1 AAAAAA
1075317 TTATGTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:1075407 original size:30 final size:28
Alignment explanation
Indices: 1075352--1075408 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
1075342 TTTATTTAAA
*
1075352 ATATTATATTTTTTATAAATTTTTTTAC
1 ATATTATATTTTTTATAAATATTTTTAC
**
1075380 ATATTAATATTTTTTTATGTATATTTTTA
1 ATATT-ATA-TTTTTTATAAATATTTTTA
1075409 TACGTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 3 0.12
30 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
ATATTATATTTTTTATAAATATTTTTAC
Found at i:1075700 original size:23 final size:22
Alignment explanation
Indices: 1075670--1075727 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
1075660 CGTGTTATAT
*
1075670 TTATTTTTATATTATGTTTTAA
1 TTATTTTTATATTATATTTTAA
* *
1075692 TTATCTTTTATGTTATATTTTTA
1 TTAT-TTTTATATTATATTTTAA
1075715 TT-TTTTGTATATT
1 TTATTTT-TATATT
1075728 TAAAGTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.10
22 10 0.33
23 17 0.57
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTTTTATATTATATTTTAA
Found at i:1075718 original size:18 final size:18
Alignment explanation
Indices: 1075671--1075728 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
1075661 GTGTTATATT
* *
1075671 TATTTTTATATTATGTTT
1 TATTTTTATTTTATGTTA
* * *
1075689 TAATTATCTTTTATGTTA
1 TATTTTTATTTTATGTTA
*
1075707 TATTTTTATTTTTTG-TA
1 TATTTTTATTTTATGTTA
1075724 TATTT
1 TATTT
1075729 AAAGTAGTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 7 0.23
18 24 0.77
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (18 bp):
TATTTTTATTTTATGTTA
Found at i:1079285 original size:190 final size:190
Alignment explanation
Indices: 1078962--1079347 Score: 700
Period size: 190 Copynumber: 2.0 Consensus size: 190
1078952 ATATATTATA
1078962 TAAAAAATAAATAATAGTATTATAATTTAATAAAGTAACTAGAATAAATACTTACGCAATGCTAC
1 TAAAAAATAAATAATAGTATTATAATTTAATAAAGTAACTAGAATAAATACTTACGCAATGCTAC
1079027 AAGTAGGTTTTCCCTATTCTTGTACATTTTACACCGTTAATAAATATAGCTATTAGTTTAAAGTC
66 AAGTAGGTTTTCCCTATTCTTGTACATTTTACACCGTTAATAAATATAGCTATTAGTTTAAAGTC
1079092 TAAATAATTTGAATAATCAAATGAAAGGTAAATGCAATAATGTAACTTGAAACTGAATTT
131 TAAATAATTTGAATAATCAAATGAAAGGTAAATGCAATAATGTAACTTGAAACTGAATTT
*
1079152 TAAAAAATAAATAATAGTATTATAATTTAATAAAGTAACTAGAATAAATACTTATGCAATGCTAC
1 TAAAAAATAAATAATAGTATTATAATTTAATAAAGTAACTAGAATAAATACTTACGCAATGCTAC
* * * *
1079217 AGGTAGGTTTTTCCTATTTTTGTACATTTTACACCGTTAATAAATATAGTTATTAGTTTAAAGTC
66 AAGTAGGTTTTCCCTATTCTTGTACATTTTACACCGTTAATAAATATAGCTATTAGTTTAAAGTC
* *
1079282 TAAATAATTTGAATAATCAAATGAAAGGTAAATGCGATAATGTAACTTGAAATTGAATTT
131 TAAATAATTTGAATAATCAAATGAAAGGTAAATGCAATAATGTAACTTGAAACTGAATTT
*
1079342 TCAAAA
1 TAAAAA
1079348 CTTTCTTTAT
Statistics
Matches: 188, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (190 bp):
TAAAAAATAAATAATAGTATTATAATTTAATAAAGTAACTAGAATAAATACTTACGCAATGCTAC
AAGTAGGTTTTCCCTATTCTTGTACATTTTACACCGTTAATAAATATAGCTATTAGTTTAAAGTC
TAAATAATTTGAATAATCAAATGAAAGGTAAATGCAATAATGTAACTTGAAACTGAATTT
Found at i:1080075 original size:76 final size:75
Alignment explanation
Indices: 1079995--1080205 Score: 233
Period size: 76 Copynumber: 2.8 Consensus size: 75
1079985 AGATCATGTA
* * *
1079995 AGAACTTTCATGTTAAAATATATTTATTAAAGTTATTTAGGTAATAGTACCTTAAAATCGAGTTT
1 AGAACTTTCATGTTGAAATATGTCTATTAAAGTTATTTAGGTAATA-TACCTTAAAATCGAGTTT
1080060 AGGGTCACGTG
65 AGGGTCACGTG
* * * * * *
1080071 AGAACTTTCATGTCGTAATATGCCTATTGAGGTTATTTAGATAATTATACCTTAAAATCGAGTTT
1 AGAACTTTCATGTTGAAATATGTCTATTAAAGTTATTTAGGTAA-TATACCTTAAAATCGAGTTT
* *
1080136 AGGTTCATGTG
65 AGGGTCACGTG
* *** * * *
1080147 AGAACCTTCGCATTGAAATATGTCCATTAAAATTATTTAGGTAATAATACTTTAAAATC
1 AGAACTTTCATGTTGAAATATGTCTATTAAAGTTATTTAGGTAAT-ATACCTTAAAATC
1080206 AAGTCTAGAA
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
75 1 0.01
76 106 0.97
77 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (75 bp):
AGAACTTTCATGTTGAAATATGTCTATTAAAGTTATTTAGGTAATATACCTTAAAATCGAGTTTA
GGGTCACGTG
Found at i:1080220 original size:76 final size:76
Alignment explanation
Indices: 1079986--1080223 Score: 230
Period size: 76 Copynumber: 3.1 Consensus size: 76
1079976 CCAAATCTAA
* * ** *** *
1079986 GATCATGTAAGAACTTTCATGTTAAAATATATTTATTAAAGTTATTTAGGTAATAGTACCTTAAA
1 GATCATGTGAGAACTTGCATGTCGAAATATGCCTATTAAAGTTATTTAGGTAATAATACCTTAAA
1080051 ATCGAGTTTAG
66 ATCGAGTTTAG
* * * * * * * *
1080062 GGTCACGTGAGAACTTTCATGTCGTAATATGCCTATTGAGGTTATTTAGATAATTATACCTTAAA
1 GATCATGTGAGAACTTGCATGTCGAAATATGCCTATTAAAGTTATTTAGGTAATAATACCTTAAA
1080127 ATCGAGTTTAG
66 ATCGAGTTTAG
* * *
1080138 GTTCATGTGAGAACCTTCGCAT-T-GAAATATGTCC-ATTAAAATTATTTAGGTAATAATACTTT
1 GATCATGTGAGAA-CTT-GCATGTCGAAATATG-CCTATTAAAGTTATTTAGGTAATAATACCTT
* *
1080200 AAAATCAAGTCTAG
63 AAAATCGAGTTTAG
*
1080214 AATCATGTGA
1 GATCATGTGA
1080224 AAATCTCTGT
Statistics
Matches: 131, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
76 122 0.93
77 6 0.05
78 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (76 bp):
GATCATGTGAGAACTTGCATGTCGAAATATGCCTATTAAAGTTATTTAGGTAATAATACCTTAAA
ATCGAGTTTAG
Found at i:1081656 original size:22 final size:21
Alignment explanation
Indices: 1081617--1081664 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1081607 TTAATATTAT
**
1081617 ATAAAAATTATATTAATTTAA
1 ATAAAAATTATAAAAATTTAA
*
1081638 TTAAAAATTATAAAAAATTTAA
1 ATAAAAATTAT-AAAAATTTAA
1081660 ATAAA
1 ATAAA
1081665 TTATTATGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAAATTATAAAAATTTAA
Found at i:1082048 original size:21 final size:22
Alignment explanation
Indices: 1082006--1082051 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1081996 ATATTAAAAA
*
1082006 TATTTTTATTATTTATCTCTCT
1 TATTTTTATTATCTATCTCTCT
1082028 TATTTTTAATTATCTA-C-CTCT
1 TATTTTT-ATTATCTATCTCTCT
1082049 TAT
1 TAT
1082052 ATCATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 8 0.36
23 7 0.32
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTTTATTATCTATCTCTCT
Found at i:1082048 original size:23 final size:22
Alignment explanation
Indices: 1082006--1082048 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1081996 ATATTAAAAA
* *
1082006 TATTTTTATTATTTATCTCTCT
1 TATTTTTATTATCTACCTCTCT
1082028 TATTTTTAATTATCTACCTCT
1 TATTTTT-ATTATCTACCTCT
1082049 TATATCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTTTATTATCTACCTCTCT
Found at i:1082167 original size:14 final size:13
Alignment explanation
Indices: 1082139--1082172 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
1082129 TTTTATTAAA
1082139 TAAA-TTTAAATT
1 TAAATTTTAAATT
1082151 TAAATTTTAATATT
1 TAAATTTTAA-ATT
1082165 TAAATTTT
1 TAAATTTT
1082173 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 5 0.25
14 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATTTTAAATT
Found at i:1088297 original size:22 final size:24
Alignment explanation
Indices: 1088239--1088297 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
1088229 ACTCATTAAA
* * *
1088239 TATTGAAATTATAATAATTTAATTT
1 TATTCAAATTA-AATAATTAAAATT
1088264 TATTCAAA-TAAATAATTAAAATT
1 TATTCAAATTAAATAATTAAAATT
1088287 TA-T-AAATTAAA
1 TATTCAAATTAAA
1088298 AAACTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 5 0.17
23 13 0.43
24 2 0.07
25 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TATTCAAATTAAATAATTAAAATT
Found at i:1089035 original size:32 final size:32
Alignment explanation
Indices: 1088937--1089037 Score: 120
Period size: 32 Copynumber: 3.2 Consensus size: 32
1088927 TAATATATCA
1088937 TAAATTTGATAA-ATTAGATATAATT-ACTCG
1 TAAATTTGATAATATTAGATATAATTAACTCG
* *
1088967 TAAATTTGATGAATATTAGATA-AAATAACTCA
1 TAAATTTGAT-AATATTAGATATAATTAACTCG
* *
1088999 TAAATTTGATAAATATTAGACATAATTAAAT-G
1 TAAATTTGAT-AATATTAGATATAATTAACTCG
1089031 TAAATTT
1 TAAATTT
1089038 ATTAAAAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
30 10 0.17
31 5 0.08
32 39 0.65
33 6 0.10
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (32 bp):
TAAATTTGATAATATTAGATATAATTAACTCG
Found at i:1090958 original size:20 final size:20
Alignment explanation
Indices: 1090916--1091028 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 20
1090906 GTTATAAGCA
1090916 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ATC
*
1090936 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTATC
* * * * *
1090956 ATGGTAGCTACTGCCA-GTTTC
1 AT-GTATCGA-TACAATGTATC
*
1090977 ATGTATCGATACAATTGT-CC
1 ATGTATCGATACAA-TGTATC
*
1090997 ATGTATCGATAGAATG-ATC
1 ATGTATCGATACAATGTATC
*
1091016 ATGTATTGATACA
1 ATGTATCGATACA
1091029 TCTGGGTGTG
Statistics
Matches: 71, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
19 17 0.24
20 38 0.54
21 13 0.18
22 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Done.