Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold76
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: 2182696
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.29
Warning! 286211 characters in sequence are not A, C, G, or T
File 8 of 13
Found at i:1383126 original size:51 final size:53
Alignment explanation
Indices: 1383057--1383398 Score: 205
Period size: 52 Copynumber: 6.5 Consensus size: 53
1383047 AGTTTATCAA
* * * * *
1383057 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
1383108 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
1383162 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * *
1383220 TAT-TTC-CGA--GGGGATACTCCAACTCCGGTTTTA--TCGCGAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
1383269 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
1383322 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
1383374 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
1383399 CTCGTTATTT
Statistics
Matches: 226, Mismatches: 36, Indels: 57
0.71 0.11 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 35 0.15
52 79 0.35
53 33 0.15
54 34 0.15
55 22 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:1383241 original size:28 final size:27
Alignment explanation
Indices: 1383174--1383242 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
1383164 CTTCACAATC
**
1383174 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1383201 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
1383229 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1383243 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1383284 original size:107 final size:105
Alignment explanation
Indices: 1383120--1383512 Score: 341
Period size: 107 Copynumber: 3.7 Consensus size: 105
1383110 TTCTATAATC
*
1383120 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
1383185 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * *
1383229 GGGGATACTCCAACTCCGGTTTTA-TCGCGAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** * *
1383293 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
* *
1383333 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
1383398 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* ** * * *** * * *
1383441 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1383506 CCCGTTA
66 CCCGTTA
1383513 TTTTCGAAAG
Statistics
Matches: 223, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 47 0.21
105 15 0.07
106 20 0.09
107 74 0.33
108 30 0.13
109 28 0.13
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:1383382 original size:104 final size:103
Alignment explanation
Indices: 1383062--1383397 Score: 297
Period size: 104 Copynumber: 3.2 Consensus size: 103
1383052 ATCAATTCTC
* * * *
1383062 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
1383126 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * * * ** * *
1383167 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * *
1383229 GGGGATACTCCAACTCCGGTTTTA--TCGCGAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
1383273 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
1383338 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1383378 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
1383398 CCTCGTTATT
Statistics
Matches: 177, Mismatches: 38, Indels: 33
0.71 0.15 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 35 0.20
106 19 0.11
107 38 0.21
108 7 0.04
109 28 0.16
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:1383418 original size:28 final size:28
Alignment explanation
Indices: 1383382--1383458 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1383372 ATTTTTCACA
* * *
1383382 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1383410 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1383438 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1383459 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:1383427 original size:212 final size:212
Alignment explanation
Indices: 1383060--1383465 Score: 638
Period size: 212 Copynumber: 1.9 Consensus size: 212
1383050 TTATCAATTC
* *
1383060 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1383125 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
1383190 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
1383255 GCGAAAACACTAATTTT
196 GCGAAAACACTAATTTT
* * * *
1383272 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
1383336 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
1383399 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
1383464 AT
193 AT
1383466 TCCCAAAATA
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 31 0.18
212 111 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCGAAAACACTAATTTT
Found at i:1393263 original size:10 final size:10
Alignment explanation
Indices: 1393248--1393323 Score: 73
Period size: 11 Copynumber: 7.2 Consensus size: 10
1393238 CTTCTCTTCA
1393248 AAAAAAAAAG
1 AAAAAAAAAG
1393258 AAAAAAAAAGG
1 AAAAAAAAA-G
*
1393269 AAAAAAAAAC
1 AAAAAAAAAG
1393279 AAAACAAAAA-
1 AAAA-AAAAAG
1393289 AACAAAACAAAG
1 AA-AAAA-AAAG
* *
1393301 AAAAAGAGAG
1 AAAAAAAAAG
1393311 AAAAGAAAAAG
1 AAAA-AAAAAG
1393322 AA
1 AA
1393324 CCTGCTTAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
10 24 0.44
11 29 0.53
12 2 0.04
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1394403 original size:59 final size:59
Alignment explanation
Indices: 1394289--1394884 Score: 737
Period size: 59 Copynumber: 10.3 Consensus size: 59
1394279 TCCGCATTTT
* * *
1394289 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCTACACAAGTTTGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
* *
1394350 AGTCCTCAGAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1394409 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1394468 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
1394527 AGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
1394586 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGCTGGCATCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTC
* *
1394647 AGTCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
1394702 AGTCCCCAAAGAGCAGGACACC-TTTC----AAAACCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
1394757 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * * *
1394812 AGTCCTCAAAGAGTAGGACGCC-TTTC---T-AAGTCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
*
1394867 AGCCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1394885 TACACTTTAT
Statistics
Matches: 481, Mismatches: 40, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
53 2 0.00
54 3 0.01
55 170 0.35
56 9 0.02
57 2 0.00
59 224 0.47
60 27 0.06
61 44 0.09
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:1395647 original size:21 final size:21
Alignment explanation
Indices: 1395621--1395698 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
1395611 AAAATTATCC
1395621 AAATGTATCGATACATTTGTA
1 AAATGTATCGATACATTTGTA
*
1395642 AAATGTATCGATACATTTGTG
1 AAATGTATCGATACATTTGTA
* *
1395663 GAATGTATCGATACA-TTCTA
1 AAATGTATCGATACATTTGTA
1395683 CAAATGTATCGATACA
1 -AAATGTATCGATACA
1395699 GGGTCCCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTA
Found at i:1395759 original size:19 final size:18
Alignment explanation
Indices: 1395734--1395798 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
1395724 ATTTCAGCGA
1395734 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1395752 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1395768 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1395784 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1395799 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1395772 original size:32 final size:32
Alignment explanation
Indices: 1395736--1395806 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1395726 TTCAGCGATT
1395736 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1395768 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1395800 TGTATCG
1 TGTATCG
1395807 CTAGGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1395773 original size:13 final size:13
Alignment explanation
Indices: 1395755--1395779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1395745 ACATAAGTGT
1395755 TGTATCGATACAA
1 TGTATCGATACAA
1395768 TGTATCGATACA
1 TGTATCGATACA
1395780 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:1396414 original size:11 final size:11
Alignment explanation
Indices: 1396385--1396416 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1396375 AATCCTTTAG
1396385 CAAAAAAAAC-
1 CAAAAAAAACA
1396395 C-AAAAAAACA
1 CAAAAAAAACA
1396405 CAAAAAAAACA
1 CAAAAAAAACA
1396416 C
1 C
1396417 TATTCCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.40
10 2 0.10
11 10 0.50
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAACA
Found at i:1398413 original size:52 final size:49
Alignment explanation
Indices: 1398299--1398417 Score: 139
Period size: 52 Copynumber: 2.3 Consensus size: 49
1398289 CCCCGTTAAT
* *
1398299 CATCGGGGATACTCCAACCCCAATTTTATTTTCAAAGCACCAATTTTCC
1 CATCGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCC
* *
1398348 CTTAATCGGGGATACTCCGACTCCAATTTTATTTCCAAAAACACCAATTTTTCAC
1 C---ATCGGGGATACTCCAACCCCAATTTTATTTCC-AAAACACCAA-TTTTC-C
*
1398403 CATCGAGGATACTCC
1 CATCGGGGATACTCC
1398418 TACCTCGTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
49 1 0.02
52 42 0.71
53 9 0.15
54 5 0.08
55 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.30
Consensus pattern (49 bp):
CATCGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCC
Found at i:1405756 original size:28 final size:28
Alignment explanation
Indices: 1405716--1405774 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
1405706 TATTTTGTCC
1405716 TAATCCTAACCCACGGAAACCTAATAGG
1 TAATCCTAACCCACGGAAACCTAATAGG
1405744 TAATCCTAACCCACGGAAACCTAATAGG
1 TAATCCTAACCCACGGAAACCTAATAGG
1405772 TAA
1 TAA
1405775 GCTTTCGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.19
Consensus pattern (28 bp):
TAATCCTAACCCACGGAAACCTAATAGG
Found at i:1406415 original size:37 final size:37
Alignment explanation
Indices: 1406357--1406446 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
1406347 GAGTTGGTCC
* * *
1406357 TAATCTGGTAATGTGCTTAGTTCT-AAATGTATTATCA
1 TAATTTGGTAATGTGCCTAGTTCTAAAAAG-ATTATCA
* *
1406394 TGATTTGGTAATGTGCCTAGTTCTAAAAAGATTATCC
1 TAATTTGGTAATGTGCCTAGTTCTAAAAAGATTATCA
*
1406431 TAATTTGCTAATGTGC
1 TAATTTGGTAATGTGC
1406447 TTTGTGGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 41 0.91
38 4 0.09
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (37 bp):
TAATTTGGTAATGTGCCTAGTTCTAAAAAGATTATCA
Found at i:1407528 original size:259 final size:260
Alignment explanation
Indices: 1407069--1407560 Score: 824
Period size: 259 Copynumber: 1.9 Consensus size: 260
1407059 TTAGTTTCAT
*
1407069 ATATATAGTTTATATTTAAAATATATGGTTATTTAATATTTTCATTTTTTATAAGTTCAAAGCCC
1 ATATATAGTTTATATTTAAAATATATGGTTATTTAATATTTTCATATTTTATAAGTTCAAAGCCC
* * *
1407134 AAAAGAGTTTTTAAAATGCAATAACTTAATCAAGAAGCAAAGTGGACTCAATTTGGCGACTTCCA
66 AAAAGAGTTTCTAAAATGCAATAACTTAATCAAGAAGCAAAGTGGACTCAATTTAGCAACTTCCA
* **
1407199 AAAATAAATTATACAAGTTAATTGCCTCTTTATAGGTTTTGCTTATTTTTATGATTTTCTACAGT
131 AAAATAAATTACACAAGTTAATTGCCTCTTTATAGGTTTTGCTTATTTTTACAATTTTCTACAGT
* *
1407264 TATAGACAAAAAA-GGGACTTAAGATTTTGTAAACCCTCTTCAAAAAAGCCACCAAAGGAATTAA
196 TATAGACAAAAAAGGGGACTTAAGACTTTATAAACCCTCTTCAAAAAAGCCACCAAAGGAATTAA
*
1407328 ATATATAGTTTATATTTGAAATATATGGTTATTTAATATTTTCATATTTTATAAGTTCAAAGCCC
1 ATATATAGTTTATATTTAAAATATATGGTTATTTAATATTTTCATATTTTATAAGTTCAAAGCCC
** * *
1407393 AAAAGAGTTTCTAAGGTGCAATAACTTAATCAAGAAGCAAAGTGGACTTAATTTAGCAACTTTCA
66 AAAAGAGTTTCTAAAATGCAATAACTTAATCAAGAAGCAAAGTGGACTCAATTTAGCAACTTCCA
* * *
1407458 AAAATAAATTACACAAGTTAATTGCCTCTTTATAGGTTTTGGTTATTTTTACAATTTTTTATAGT
131 AAAATAAATTACACAAGTTAATTGCCTCTTTATAGGTTTTGCTTATTTTTACAATTTTCTACAGT
1407523 TATAGACAAAAAAGGGGACTTAAGACTTTATAAACCCT
196 TATAGACAAAAAAGGGGACTTAAGACTTTATAAACCCT
1407561 ATTTTTTTGA
Statistics
Matches: 215, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
259 193 0.90
260 22 0.10
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (260 bp):
ATATATAGTTTATATTTAAAATATATGGTTATTTAATATTTTCATATTTTATAAGTTCAAAGCCC
AAAAGAGTTTCTAAAATGCAATAACTTAATCAAGAAGCAAAGTGGACTCAATTTAGCAACTTCCA
AAAATAAATTACACAAGTTAATTGCCTCTTTATAGGTTTTGCTTATTTTTACAATTTTCTACAGT
TATAGACAAAAAAGGGGACTTAAGACTTTATAAACCCTCTTCAAAAAAGCCACCAAAGGAATTAA
Found at i:1408280 original size:24 final size:24
Alignment explanation
Indices: 1408253--1408300 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1408243 TGTCCATCTT
1408253 TTTAATATAATC-TATATATATATA
1 TTTAATATAATCTTAT-TATATATA
1408277 TTTAATATAATCTTATTATATATA
1 TTTAATATAATCTTATTATATATA
1408301 AGACATCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAATATAATCTTATTATATATA
Found at i:1411338 original size:18 final size:18
Alignment explanation
Indices: 1411317--1411368 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
1411307 CAATAGCTTT
1411317 ACTAGCATCAATATCGCC
1 ACTAGCATCAATATCGCC
*
1411335 ACTAGCATCAATATCGTC
1 ACTAGCATCAATATCGCC
*
1411353 ACTATCATCAATATCG
1 ACTAGCATCAATATCG
1411369 ATATCATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.27
Consensus pattern (18 bp):
ACTAGCATCAATATCGCC
Found at i:1411338 original size:36 final size:35
Alignment explanation
Indices: 1411291--1411380 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 35
1411281 GTCACAATCG
* *
1411291 ATATCGTCACTATCATCAATAGCTTTACTAGCATCA
1 ATATCG-CACTATCATCAATAGCGTCACTAGCATCA
* * *
1411327 ATATCGCCACTAGCATCAATATCGTCACTATCATCA
1 ATATCG-CACTATCATCAATAGCGTCACTAGCATCA
1411363 ATATCG-A-TATCATCAATA
1 ATATCGCACTATCATCAATA
1411381 AGAAAACCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
33 10 0.21
34 1 0.02
36 36 0.77
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (35 bp):
ATATCGCACTATCATCAATAGCGTCACTAGCATCA
Found at i:1411373 original size:15 final size:17
Alignment explanation
Indices: 1411291--1411380 Score: 85
Period size: 18 Copynumber: 5.2 Consensus size: 17
1411281 GTCACAATCG
1411291 ATATCGTCACTATCATCA
1 ATATCG-CACTATCATCA
* ** *
1411309 ATAGCTTTACTAGCATCA
1 ATATC-GCACTATCATCA
*
1411327 ATATCGCCACTAGCATCA
1 ATATCG-CACTATCATCA
1411345 ATATCGTCACTATCATCA
1 ATATCG-CACTATCATCA
1411363 ATATCG-A-TATCATCA
1 ATATCGCACTATCATCA
1411378 ATA
1 ATA
1411381 AGAAAACCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
18 49 0.80
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (17 bp):
ATATCGCACTATCATCA
Found at i:1412995 original size:20 final size:20
Alignment explanation
Indices: 1412970--1413033 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
1412960 TACCTAGATG
1412970 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
1412990 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* *
1413010 TATCGATACATTCTTCAATC
1 TATCGATACATTTTTCAATA
1413030 TATC
1 TATC
1413034 AACACATTCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:1426981 original size:9 final size:9
Alignment explanation
Indices: 1426967--1427037 Score: 72
Period size: 9 Copynumber: 7.8 Consensus size: 9
1426957 TTACACCCAA
1426967 AAAAAAACC
1 AAAAAAACC
*
1426976 -AAAAAACA
1 AAAAAAACC
*
1426984 AAAAAAACA
1 AAAAAAACC
*
1426993 AAAAAAACAT
1 AAAAAAAC-C
1427003 AAAAAAACC
1 AAAAAAACC
*
1427012 AAAAAAAAC
1 AAAAAAACC
*
1427021 AAAAAACCC
1 AAAAAAACC
1427030 AATAAAAA
1 AA-AAAAA
1427038 ATAGCAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
8 7 0.13
9 33 0.63
10 12 0.23
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAACC
Found at i:1426981 original size:10 final size:9
Alignment explanation
Indices: 1426966--1427026 Score: 88
Period size: 9 Copynumber: 6.7 Consensus size: 9
1426956 TTTACACCCA
1426966 AAAAAAAAC
1 AAAAAAAAC
*
1426975 -CAAAAAAC
1 AAAAAAAAC
1426983 AAAAAAAAC
1 AAAAAAAAC
1426992 AAAAAAAAC
1 AAAAAAAAC
1427001 ATAAAAAAACC
1 A-AAAAAAA-C
1427012 AAAAAAAAC
1 AAAAAAAAC
1427021 AAAAAA
1 AAAAAA
1427027 CCCAATAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
8 7 0.15
9 24 0.51
10 14 0.30
11 2 0.04
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1426987 original size:18 final size:18
Alignment explanation
Indices: 1426964--1427028 Score: 80
Period size: 17 Copynumber: 3.7 Consensus size: 18
1426954 TCTTTACACC
1426964 CAAAAAAAAACCAAAAAA
1 CAAAAAAAAACCAAAAAA
*
1426982 C-AAAAAAAACAAAAAAAA
1 CAAAAAAAAAC-CAAAAAA
*
1427000 CATAAAAAAACCAAAAAA
1 CAAAAAAAAACCAAAAAA
*
1427018 -AACAAAAAACC
1 CAAAAAAAAACC
1427029 CAATAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 18 0.45
18 14 0.35
19 8 0.20
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAACCAAAAAA
Found at i:1426997 original size:29 final size:29
Alignment explanation
Indices: 1426976--1427049 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
1426966 AAAAAAAACC
1426976 AAAAAACAAAAAAAACAAAAAAAACATAA
1 AAAAAACAAAAAAAACAAAAAAAACATAA
* **
1427005 AAAAACCAAAAAAAACAAAAAACCCAATAA
1 AAAAAACAAAAAAAACAAAAAAAAC-ATAA
*
1427035 AAAATAGCAAAAAAA
1 AAAA-AACAAAAAAA
1427050 TAGAAAGGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 22 0.56
30 8 0.21
31 9 0.23
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.04
Consensus pattern (29 bp):
AAAAAACAAAAAAAACAAAAAAAACATAA
Found at i:1427031 original size:18 final size:18
Alignment explanation
Indices: 1426967--1427038 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
1426957 TTACACCCAA
1426967 AAAAAAACC--AAAAAAC
1 AAAAAAACCAAAAAAAAC
*
1426983 AAAAAAAACAAAAAAAAC
1 AAAAAAACCAAAAAAAAC
1427001 ATAAAAAAACCAAAAAAAAC
1 --AAAAAAACCAAAAAAAAC
*
1427021 AAAAAACCCAATAAAAAA
1 AAAAAAACCAA-AAAAAA
1427039 TAGCAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
16 8 0.17
18 17 0.35
19 6 0.12
20 17 0.35
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (18 bp):
AAAAAAACCAAAAAAAAC
Found at i:1427036 original size:17 final size:17
Alignment explanation
Indices: 1426968--1427038 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 17
1426958 TACACCCAAA
1426968 AAAAAACCAAAAAACAA-
1 AAAAAACCAAAAAA-AAC
1426985 AAAAAA-CAAAAAAAAC
1 AAAAAACCAAAAAAAAC
1427001 ATAAAAAAACCAAAAAAAAC
1 ---AAAAAACCAAAAAAAAC
1427021 AAAAAACCCAATAAAAAA
1 AAAAAA-CCAA-AAAAAA
1427039 TAGCAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.04
16 7 0.15
17 12 0.26
18 4 0.09
19 12 0.26
20 10 0.21
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAACCAAAAAAAAC
Found at i:1428304 original size:28 final size:28
Alignment explanation
Indices: 1428270--1428735 Score: 532
Period size: 28 Copynumber: 16.5 Consensus size: 28
1428260 CGTTCATCTC
* * * *
1428270 TTCAAAGCCCCCAAGTTAGTGCCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1428298 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1428326 TTCAAAGCCCACACAAGTCAGTGGCATCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
*
1428356 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1428384 TTCAAAGCCAACAAGTC-----C--CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1428405 TTCAAAGACCACAAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
* *
1428435 TTCAAAACCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1428463 TTCGAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1428491 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1428519 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1428547 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
1428576 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1428604 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1428632 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
1428661 TTCAAAGCCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* * *
1428691 TTCAAAGCCCGCATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
1428723 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1428736 CAAGTTAGTG
Statistics
Matches: 380, Mismatches: 41, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
21 18 0.05
23 1 0.00
26 1 0.00
28 218 0.57
29 52 0.14
30 65 0.17
32 25 0.07
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1428407 original size:21 final size:21
Alignment explanation
Indices: 1428381--1428421 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1428371 TCAATGGCAT
1428381 CCTTTCAAAG-CCAACAAGTCC
1 CCTTTCAAAGACC-ACAAGTCC
1428402 CCTTTCAAAGACCACAAGTC
1 CCTTTCAAAGACCACAAGTC
1428422 AGTGGCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.34, C:0.37, G:0.10, T:0.20
Consensus pattern (21 bp):
CCTTTCAAAGACCACAAGTCC
Found at i:1428620 original size:85 final size:85
Alignment explanation
Indices: 1428404--1428700 Score: 434
Period size: 85 Copynumber: 3.5 Consensus size: 85
1428394 ACAAGTCCCC
* * * * *
1428404 TTTCAAAGACCACAAGTCAGTGGCAACTCTTTTCAAAACCCACAAGTCAATGGCATCCTTTCGAA
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAA
*
1428469 GCCCACAAGTCAGTGGCAC-CC
64 GCCCACAAGTCAGTGGCACTCT
*
1428490 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGC
1428555 CCACAAGTCAGTGGCACTCT
66 CCACAAGTCAGTGGCACTCT
* *
1428575 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGC
*
1428640 CCACAAGTTAGTGGCACTCT
66 CCACAAGTCAGTGGCACTCT
* * *
1428660 TTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCC
1 TTTCAAAGCCCACAAGTCAGTGG-CAC-CCTTTCAAAGCCC
1428701 GCATGAGTCG
Statistics
Matches: 193, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
84 52 0.27
85 104 0.54
86 25 0.13
87 12 0.06
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACTCT
Found at i:1428881 original size:45 final size:45
Alignment explanation
Indices: 1428811--1428933 Score: 113
Period size: 49 Copynumber: 2.6 Consensus size: 45
1428801 CTGTCTAACA
* * * *
1428811 TCGCTAGCATTGAATCAACATATTGGCACATTT-ATTAGCCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACATTTCATT-GCCTAATG
* *
1428856 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCCTTGCCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGG--CACATTT--CATTGCCTAATG
* **
1428905 TCACTGGCCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
1428934 TCGTCTCATC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
45 22 0.34
47 9 0.14
49 31 0.48
50 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (45 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACATTTCATTGCCTAATG
Found at i:1429651 original size:20 final size:20
Alignment explanation
Indices: 1429628--1429702 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1429618 AAGTACCCAG
1429628 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1429648 ATGTATCGATAAATGTATGA
1 ATGTATCGATACATTTTTCA
*
1429668 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1429688 ATGTATCGGTACATT
1 ATGTATCGATACATT
1429703 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1434789 original size:14 final size:14
Alignment explanation
Indices: 1434772--1434802 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1434762 AATGGATATA
1434772 TATCGTATAATTCT
1 TATCGTATAATTCT
1434786 TATCGTATAATTCT
1 TATCGTATAATTCT
1434800 TAT
1 TAT
1434803 ATATATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (14 bp):
TATCGTATAATTCT
Found at i:1436088 original size:18 final size:18
Alignment explanation
Indices: 1436061--1436131 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
1436051 AAGTGAAATC
* * *
1436061 CACTATCATCAATAGCTT
1 CACTAGCATCAATATCGT
1436079 CACTAGCATCAATATCGT
1 CACTAGCATCAATATCGT
1436097 CACTAGCATCAATATCGT
1 CACTAGCATCAATATCGT
*
1436115 CACTATCATCAATATCG
1 CACTAGCATCAATATCG
1436132 ATATCATCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (18 bp):
CACTAGCATCAATATCGT
Found at i:1436130 original size:9 final size:9
Alignment explanation
Indices: 1436064--1436130 Score: 53
Period size: 9 Copynumber: 7.4 Consensus size: 9
1436054 TGAAATCCAC
1436064 TATCATCAA
1 TATCATCAA
* * *
1436073 TAGCTTCAC
1 TATCATCAA
*
1436082 TAGCATCAA
1 TATCATCAA
* *
1436091 TATCGTCAC
1 TATCATCAA
*
1436100 TAGCATCAA
1 TATCATCAA
* *
1436109 TATCGTCAC
1 TATCATCAA
1436118 TATCATCAA
1 TATCATCAA
1436127 TATC
1 TATC
1436131 GATATCATCA
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.31
Consensus pattern (9 bp):
TATCATCAA
Found at i:1436136 original size:15 final size:17
Alignment explanation
Indices: 1436061--1436143 Score: 89
Period size: 18 Copynumber: 4.8 Consensus size: 17
1436051 AAGTGAAATC
* *
1436061 CACTATCATCAATAGCTT
1 CACTATCATCAATATC-G
*
1436079 CACTAGCATCAATATCG
1 CACTATCATCAATATCG
*
1436096 TCACTAGCATCAATATCG
1 -CACTATCATCAATATCG
1436114 TCACTATCATCAATATCG
1 -CACTATCATCAATATCG
1436132 -A-TATCATCAATA
1 CACTATCATCAATA
1436144 AGAAAACCTT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
18 48 0.80
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (17 bp):
CACTATCATCAATATCG
Found at i:1446906 original size:320 final size:320
Alignment explanation
Indices: 1446323--1446931 Score: 1058
Period size: 320 Copynumber: 1.9 Consensus size: 320
1446313 ATACTGAGCC
1446323 AACTGTAAATATGCTTAGCATTGGGGATAAATATGAAGTTAAAGCAAGCATAGAAGAAGTAAAAA
1 AACTGTAAATATGCTTAGCATTGGGGATAAATATGAAGTTAAAGCAAGCATAGAAGAAGTAAAAA
* * *
1446388 TGCCAATGTCTTCGGTCTGGCATGCATTGAGTCAAGTTGGATTACTTAATGCAGCAAAAAATTTG
66 TGCCAATGTCCTCAGTCTGGCATGCATTGAGTCAAGTTGGATTACTTAATGCAGCAAAAAAGTTG
* *
1446453 GAGGATAAGCTCAACAACTTTTGTGACTTCCACACTGCTGTAGGCCATACCTTACAAACATGCAA
131 AAGGATAAGCTCAACAACTTTTGTGACTTCCACACTGCTGTAGGCCACACCTTACAAACATGCAA
* * * *
1446518 GGAGTTTAGGGCCATGGTTTAGAGAATGATGGATGAAGGCCAGATAGAATTCTATCATGAAGCCA
196 GGAATTTAGGGCCATGATTCAGAGAATGATGGATGAAGGCCAGATAGAATTCTATCATGAAACCA
*
1446583 CGCCTACT-GTCGAATCCATCAACATGATAGAAGAAGTAAATATGCTTGGCATATTGAGTT
261 CGCCTACTACT-GAATCCATCAACATGATAGAAGAAGTAAATATGCTTGGCATATTGAGTT
* *
1446643 AACTGTAAATATGCTTGGCATTGGGGATAAATATGAAGTTAAAGTAAGCATAGAAGAAGTAAAAA
1 AACTGTAAATATGCTTAGCATTGGGGATAAATATGAAGTTAAAGCAAGCATAGAAGAAGTAAAAA
1446708 TGCCAATGTCCTCAGTCTGGCATGCATTGAGTCAAGTTGGATTACTTAATGCAGCAAAAAAGTTG
66 TGCCAATGTCCTCAGTCTGGCATGCATTGAGTCAAGTTGGATTACTTAATGCAGCAAAAAAGTTG
* * *
1446773 AAGGATAAGCTCAGCAACTTTTGTGACTTCCACACTGTTGTAGGCCACACCTTACAAATATGCAA
131 AAGGATAAGCTCAACAACTTTTGTGACTTCCACACTGCTGTAGGCCACACCTTACAAACATGCAA
*
1446838 GGAATTTAGGGCCATGATTCAGAGAATGATGGATGAAGGCCAGATATAATTCTATCATGAAACCA
196 GGAATTTAGGGCCATGATTCAGAGAATGATGGATGAAGGCCAGATAGAATTCTATCATGAAACCA
1446903 CGCCTACTACTGAATCCATCAACATGATA
261 CGCCTACTACTGAATCCATCAACATGATA
1446932 AGAGACAAAG
Statistics
Matches: 272, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
320 271 1.00
321 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (320 bp):
AACTGTAAATATGCTTAGCATTGGGGATAAATATGAAGTTAAAGCAAGCATAGAAGAAGTAAAAA
TGCCAATGTCCTCAGTCTGGCATGCATTGAGTCAAGTTGGATTACTTAATGCAGCAAAAAAGTTG
AAGGATAAGCTCAACAACTTTTGTGACTTCCACACTGCTGTAGGCCACACCTTACAAACATGCAA
GGAATTTAGGGCCATGATTCAGAGAATGATGGATGAAGGCCAGATAGAATTCTATCATGAAACCA
CGCCTACTACTGAATCCATCAACATGATAGAAGAAGTAAATATGCTTGGCATATTGAGTT
Found at i:1453550 original size:28 final size:28
Alignment explanation
Indices: 1453519--1453972 Score: 543
Period size: 28 Copynumber: 15.8 Consensus size: 28
1453509 CGTTCATCTC
* *
1453519 TTCAAAGCCCACAGGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1453547 TTCAAAGCCCACAGGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1453575 TTCAAAGCCCACAATTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1453603 TTCAAAGCCCACAAGTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1453631 TTCAATGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1453659 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
1453689 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1453716 CTTCAAAAGACCACAAGTTAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
1453746 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1453774 TTCAAAGCCCACAAGTTAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* * *
1453804 TTCAAAGCCCACAAAAATCAATGGCACCCT
1 TTCAAAGCCCAC--AAGTCAGTGGCATCCT
* * *
1453834 TCCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1453862 TTCAAAGCCCACAAGTCAGTAGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
1453890 TTCAAAGCCCTCAAGTCAGTAGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1453918 TTCAAAGCCCACAAGTCAGTGGCATCCCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
1453948 TTCAAAGCCCACACAAGTCAGTGGC
1 TTCAAAG-CC-CACAAGTCAGTGGC
1453973 TTTAAAGCCC
Statistics
Matches: 370, Mismatches: 41, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.01
28 250 0.68
29 27 0.07
30 65 0.18
31 2 0.01
32 23 0.06
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1454013 original size:144 final size:141
Alignment explanation
Indices: 1453544--1454017 Score: 493
Period size: 144 Copynumber: 3.3 Consensus size: 141
1453534 TTAGTGGCAT
* * * *
1453544 CCTTTCAAAGCCCACAGGTCAGTGGCA---TCATTTCAAAGCCCACAATTCAGTGGCATCCTTTC
1 CCTTT-AAAGCCCACAAGTTAGTGGCACCTTC-TTTAAAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1453606 AAAGCCCACAAGTCAGTGGTACCCCTTCAATGCCCACAAGTCAGTGGCA-CCCTTTCAAAG-CC-
64 AAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCATCCCTTTCAAAGCCCA
1453668 CACAAGTCAGTGG
129 CACAAGTCAGTGG
* * * * *
1453681 TAACTCTTTTCAAAGCCCACAAGTCAGTGGCATC-TCTTCAAAAGACCACAAGTTAGTGGCATCC
1 ---C-C-TTT-AAAGCCCACAAGTTAGTGGCACCTTCTTTAAAAGCCCACAAGTCAGTGGCATCC
* *
1453745 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAA
60 TTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCAT-CCCTTTCAAA
* * *
1453810 GCCCACAAAAATCAATGG
124 GCCCACACAAGTCAGTGG
* * *
1453828 CACCCTTCCAAAGCCCACAAGTTAGTGGCACC--CTTTCAAAGCCCACAAGTCAGTAGCA-CCAT
1 ---CCTT-TAAAGCCCACAAGTTAGTGGCACCTTCTTTAAAAGCCCACAAGTCAGTGGCATCC-T
* * *
1453890 TTCAAAGCCCTCAAGTCAGTAGTATCCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAG
61 TTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCAT-CCCTTTCAAAG
1453955 CCCACACAAGTCAGTGG
125 CCCACACAAGTCAGTGG
* *
1453972 -CTTTAAAGCCCACATAAGTTAGTAGCACCTTTTTTTAAAAGCCCAC
1 CCTTTAAAGCCCAC--AAGTTAGTGGCACC-TTCTTTAAAAGCCCAC
1454018 GCAAGTCGAA
Statistics
Matches: 283, Mismatches: 36, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
139 9 0.03
140 4 0.01
141 14 0.05
142 24 0.08
143 74 0.26
144 109 0.39
145 34 0.12
146 3 0.01
147 12 0.04
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (141 bp):
CCTTTAAAGCCCACAAGTTAGTGGCACCTTCTTTAAAAGCCCACAAGTCAGTGGCATCCTTTCAA
AGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCATCCCTTTCAAAGCCCACA
CAAGTCAGTGG
Found at i:1454229 original size:48 final size:48
Alignment explanation
Indices: 1454108--1454381 Score: 336
Period size: 48 Copynumber: 5.8 Consensus size: 48
1454098 GGCACCTTTA
** * *
1454108 TTAGCTCAATGTTGCTGGCCTTGAATCAGCACATTGTCCACCTTT--A
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
1454154 TTACCTCAATGTCACTAGCCTTGAATCAGCACGTTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
** *
1454202 TTAGCTCAATGTCGTTGGCCGTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* ** *
1454250 TTAACTCAATGTCGTTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* ** *
1454298 TTTGCTCAATGTCACTGTTCTTGAATCAGCACATTGTCCCCTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
1454346 TTAGCTCGATGTCATTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTG
1454382 GCATTCCTCT
Statistics
Matches: 195, Mismatches: 31, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
46 39 0.20
48 156 0.80
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:1454329 original size:144 final size:142
Alignment explanation
Indices: 1454112--1454381 Score: 371
Period size: 144 Copynumber: 1.9 Consensus size: 142
1454102 CCTTTATTAG
*
1454112 CTCAATGTTGCTGGCCTTGAATCAGCACATTGTCCACCTTTATTACCTCAATGTCACTAGCCTTG
1 CTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACCTTTATTACCTCAATGTCACTAGCCTTG
* *
1454177 AATCAGCACGTTGTCCACTTTTCCCTTAGCTCAATGTCGTTGGCCGTGAATCAGCACATTGTCCA
66 AATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCATTGGCCGTGAATCAGCACATTGTCCA
1454242 CTTTTCCCTTAA
131 CTTTTCCCTTAA
* * * * ** *
1454254 CTCAATGTCGTTGGCCTTGAATTAGCACATTGTCCACTTTTCCCTTTGCTCAATGTCACT-GTTC
1 CTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACCTTT--ATTACCTCAATGTCACTAG-CC
* * * **
1454318 TTGAATCAGCACATTGTCCCCTTTTCCCTTAGCTCGATGTCATTGGCCTTGAATTGGCACATTG
63 TTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCATTGGCCGTGAATCAGCACATTG
1454382 GCATTCCTCT
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
142 37 0.34
143 1 0.01
144 72 0.65
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (142 bp):
CTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACCTTTATTACCTCAATGTCACTAGCCTTG
AATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCATTGGCCGTGAATCAGCACATTGTCCA
CTTTTCCCTTAA
Found at i:1458932 original size:13 final size:13
Alignment explanation
Indices: 1458914--1458939 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1458904 CAATTTTTTG
1458914 TGTATCGATACAT
1 TGTATCGATACAT
1458927 TGTATCGATACAT
1 TGTATCGATACAT
1458940 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1459660 original size:21 final size:21
Alignment explanation
Indices: 1459636--1459680 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1459626 CGTTTATTAA
*
1459636 TAAATCTCCCCCTTAATCAGG
1 TAAATCTCCCCCTTAATCAAG
1459657 TAAATCTCCCCCTTAATCAAG
1 TAAATCTCCCCCTTAATCAAG
1459678 TAA
1 TAA
1459681 TTCATATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.29
Consensus pattern (21 bp):
TAAATCTCCCCCTTAATCAAG
Found at i:1460371 original size:34 final size:34
Alignment explanation
Indices: 1460328--1460395 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1460318 AGAAAATGAA
1460328 GTAGGCTAGGTTGGGTCTTCGGCTGGTACGAATC
1 GTAGGCTAGGTTGGGTCTTCGGCTGGTACGAATC
1460362 GTAGGCTAGGTTGGGTCTTCGGCTGGTACGAATC
1 GTAGGCTAGGTTGGGTCTTCGGCTGGTACGAATC
1460396 ATGTGGAGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.15, C:0.18, G:0.38, T:0.29
Consensus pattern (34 bp):
GTAGGCTAGGTTGGGTCTTCGGCTGGTACGAATC
Found at i:1461541 original size:13 final size:13
Alignment explanation
Indices: 1461523--1461560 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1461513 ATAATCACCC
1461523 TGTATCGATACAT
1 TGTATCGATACAT
1461536 TGTATCGATACAT
1 TGTATCGATACAT
1461549 TGTATCGATACA
1 TGTATCGATACA
1461561 AAGAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1463669 original size:15 final size:15
Alignment explanation
Indices: 1463649--1463679 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1463639 ATTTCGTTTG
*
1463649 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1463664 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1463679 G
1 G
1463680 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1465512 original size:21 final size:21
Alignment explanation
Indices: 1465483--1465527 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1465473 AAGTTTTCAT
*
1465483 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1465503 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1465525 TTT
1 TTT
1465528 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1467776 original size:13 final size:13
Alignment explanation
Indices: 1467758--1467783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1467748 CAATTTTTTG
1467758 TGTATCGATACAT
1 TGTATCGATACAT
1467771 TGTATCGATACAT
1 TGTATCGATACAT
1467784 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1472244 original size:13 final size:13
Alignment explanation
Indices: 1472226--1472251 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1472216 CAATTTTTTG
1472226 TGTATCGATACAT
1 TGTATCGATACAT
1472239 TGTATCGATACAT
1 TGTATCGATACAT
1472252 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1474739 original size:13 final size:13
Alignment explanation
Indices: 1474721--1474746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1474711 ATAATCACCC
1474721 TGTATCGATACAA
1 TGTATCGATACAA
1474734 TGTATCGATACAA
1 TGTATCGATACAA
1474747 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1476851 original size:15 final size:15
Alignment explanation
Indices: 1476831--1476861 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1476821 ATTTCGTTTG
*
1476831 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1476846 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1476861 G
1 G
1476862 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1480937 original size:13 final size:13
Alignment explanation
Indices: 1480919--1480944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1480909 CAATTTTTTG
1480919 TGTATCGATACAT
1 TGTATCGATACAT
1480932 TGTATCGATACAT
1 TGTATCGATACAT
1480945 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1484277 original size:48 final size:48
Alignment explanation
Indices: 1484215--1484392 Score: 252
Period size: 48 Copynumber: 3.8 Consensus size: 48
1484205 AGAGGAGTGC
** * *
1484215 CAATGTGCCAATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGCGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
1484263 TAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
1484311 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGTGAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
1484357 CAATGTGCTGCTTCAAGGCCAGCGAGATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1484393 TAAAGGTGCC
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 41 0.34
48 78 0.66
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:1484377 original size:46 final size:47
Alignment explanation
Indices: 1484215--1484417 Score: 241
Period size: 48 Copynumber: 4.3 Consensus size: 47
1484205 AGAGGAGTGC
** * *
1484215 CAATGTGCCAATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGCGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-GGAAAAGTGGA
*
1484263 TAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-GGAAAAGTGGA
* * *
1484311 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-TAAAGGTGAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGAAAAGTGGA
* * * * *
1484357 CAATGTGCTGCTTCAAGGCCAGCGAGATTGAGCTAA-TAAAGGT-GC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGAAAAGTGGA
*
1484402 CAATATGCTGATTCAA
1 CAATGTGCTGATTCAA
1484418 TGCTAGTGAT
Statistics
Matches: 140, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
45 14 0.10
46 48 0.34
48 78 0.56
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGAAAAGTGGA
Found at i:1484392 original size:94 final size:95
Alignment explanation
Indices: 1484215--1484392 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 95
1484205 AGAGGAGTGC
* *
1484215 CAATGTGCCAATTCAAGGCCAACGACATTGAGCTAAGGGAAAAGCGGATAATGTGCTGATTCAAG
1 CAATGTGCCAATTCAAGGCCAACGACATTGAGCTAA-GGAAAAGCGAACAATGTGCTGATTCAAG
1484280 GCCAGCGACATTGAGCTAAGGGAAAAGTGGA
65 GCCAGCGACATTGAGCTAAGGGAAAAGTGGA
** * * * * *
1484311 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-TAAAGGTGAACAATGTGCTGCTTCAAGG
1 CAATGTGCCAATTCAAGGCCAACGACATTGAGCTAAGGAAAAGCGAACAATGTGCTGATTCAAGG
*
1484375 CCAGCGAGATTGAGCTAA
66 CCAGCGACATTGAGCTAA
1484393 TAAAGGTGCC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 39 0.54
96 33 0.46
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (95 bp):
CAATGTGCCAATTCAAGGCCAACGACATTGAGCTAAGGAAAAGCGAACAATGTGCTGATTCAAGG
CCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:1484579 original size:30 final size:29
Alignment explanation
Indices: 1484540--1484713 Score: 203
Period size: 28 Copynumber: 6.0 Consensus size: 29
1484530 CACCGACTTA
*
1484540 TGTGGGCTTTGAAAGGGGATGCCAATGACT
1 TGTGGGCTTTGAAAGGGG-TGCCACTGACT
* *
1484570 TGTGTGCTTTG-AAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1484598 TGTGGGCTTTGAAA-GGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
*
1484626 TGTGGGCTTTGAAA-GGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGGTGCCACTGA-CT
*
1484655 GTGTGGGCTTTGAAAGGGCATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG-GTGCCACTGACT
* * * *
1484686 TGTGTGTTTTG-AAGGGGTACCATTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1484714 GCAATACTAG
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
28 67 0.53
29 14 0.11
30 33 0.26
31 3 0.02
32 9 0.07
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGGGTGCCACTGACT
Found at i:1484635 original size:56 final size:58
Alignment explanation
Indices: 1484540--1484714 Score: 246
Period size: 56 Copynumber: 3.0 Consensus size: 58
1484530 CACCGACTTA
*
1484540 TGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGTGCTTTGAAGGGGTACCACTGACT-
1 TGTGGGCTTTGAAA-GGGATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGACTG
* * * *
1484598 TGTGGGCTTTGAAAGGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTG
1 TGTGGGCTTTGAAAGGGATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGA-CTG
* *
1484656 TGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTACCATTGACTG
1 TGTGGGCTTTGAAAGGG-ATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGACTG
1484715 CAATACTAGA
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
56 33 0.32
57 4 0.04
58 31 0.30
59 2 0.02
60 32 0.31
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.31
Consensus pattern (58 bp):
TGTGGGCTTTGAAAGGGATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGACTG
Found at i:1484819 original size:48 final size:48
Alignment explanation
Indices: 1484745--1484922 Score: 252
Period size: 48 Copynumber: 3.8 Consensus size: 48
1484735 AGAGGAGTGC
** * * *
1484745 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGCGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
1484793 TAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
1484841 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGTGAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
1484887 CAATGTGCTGCTTCAAGGCCAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1484923 TAAAGGTGCC
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 42 0.35
48 77 0.65
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.19
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:1484867 original size:25 final size:25
Alignment explanation
Indices: 1484839--1484913 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
1484829 GGGAAAAGTG
1484839 GACAATGTGCTGATTCAAGGCCAGC
1 GACAATGTGCTGATTCAAGGCCAGC
* * * * *
1484864 GACATTGAGCT-AATAAAGG--TG-
1 GACAATGTGCTGATTCAAGGCCAGC
* *
1484885 AACAATGTGCTGCTTCAAGGCCAGC
1 GACAATGTGCTGATTCAAGGCCAGC
1484910 GACA
1 GACA
1484914 TTGAGCTAAT
Statistics
Matches: 33, Mismatches: 13, Indels: 8
0.61 0.24 0.15
Matches are distributed among these distances:
21 8 0.24
22 6 0.18
24 7 0.21
25 12 0.36
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (25 bp):
GACAATGTGCTGATTCAAGGCCAGC
Found at i:1484882 original size:24 final size:24
Alignment explanation
Indices: 1484855--1484928 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
1484845 GTGCTGATTC
1484855 AAGGCCAGCGACATTGAGCTAATA
1 AAGGCCAGCGACATTGAGCTAATA
** * * *
1484879 AAGGTGAAC-A-ATGTGCTGCT--TC
1 AAGGCCAGCGACAT-TG-AGCTAATA
1484901 AAGGCCAGCGACATTGAGCTAATA
1 AAGGCCAGCGACATTGAGCTAATA
1484925 AAGG
1 AAGG
1484929 TGCCAATATG
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
22 12 0.35
23 6 0.18
24 16 0.47
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
AAGGCCAGCGACATTGAGCTAATA
Found at i:1484907 original size:46 final size:45
Alignment explanation
Indices: 1484745--1484947 Score: 228
Period size: 48 Copynumber: 4.4 Consensus size: 45
1484735 AGAGGAGTGC
** * * *
1484745 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGCG-GA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA---TAAAG-GTGA
* * *
1484793 TAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGT-GA
1484841 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTG-A
* *
1484887 CAATGTGCTGCTTCAAGGCCAGCGACATTGAGCTAATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGA
*
1484932 CAATATGCTGATTCAA
1 CAATGTGCTGATTCAA
1484948 TGCTAGTGAT
Statistics
Matches: 138, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
45 15 0.11
46 50 0.36
47 5 0.04
48 68 0.49
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (45 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGA
Found at i:1485109 original size:30 final size:29
Alignment explanation
Indices: 1485070--1485243 Score: 203
Period size: 28 Copynumber: 6.0 Consensus size: 29
1485060 CACCGACTTA
*
1485070 TGTGGGCTTTGAAAGGGGATGCCAATGACT
1 TGTGGGCTTTGAAAGGGG-TGCCACTGACT
* *
1485100 TGTGTGCTTTG-AAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1485128 TGTGGGCTTTGAAA-GGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
*
1485156 TGTGGGCTTTGAAA-GGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGGTGCCACTGA-CT
*
1485185 GTGTGGGCTTTGAAAGGGCATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG-GTGCCACTGACT
* * * *
1485216 TGTGTGTTTTG-AAGGGGTACCATTGACT
1 TGTGGGCTTTGAAAGGGGTGCCACTGACT
1485244 GCAATACTAG
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
28 67 0.53
29 14 0.11
30 33 0.26
31 3 0.02
32 9 0.07
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGGGTGCCACTGACT
Found at i:1485165 original size:56 final size:58
Alignment explanation
Indices: 1485070--1485244 Score: 246
Period size: 56 Copynumber: 3.0 Consensus size: 58
1485060 CACCGACTTA
*
1485070 TGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGTGCTTTGAAGGGGTACCACTGACT-
1 TGTGGGCTTTGAAA-GGGATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGACTG
* * * *
1485128 TGTGGGCTTTGAAAGGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTG
1 TGTGGGCTTTGAAAGGGATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGA-CTG
* *
1485186 TGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTACCATTGACTG
1 TGTGGGCTTTGAAAGGG-ATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGACTG
1485245 CAATACTAGA
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
56 33 0.32
57 4 0.04
58 31 0.30
59 2 0.02
60 32 0.31
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.31
Consensus pattern (58 bp):
TGTGGGCTTTGAAAGGGATGCCACTGACTTGTGTGCTTTGAAGGGGTACCACTGACTG
Found at i:1485186 original size:530 final size:530
Alignment explanation
Indices: 1484185--1485773 Score: 3151
Period size: 530 Copynumber: 3.0 Consensus size: 530
1484175 TCAAGGCCTA
*
1484185 CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATTGAGCTA
1 CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATCGAGCTA
1484250 AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAAT
66 AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAAT
1484315 GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
131 GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
*
1484380 GAGATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
196 GACATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
1484445 CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
261 CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
1484510 ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
326 ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
1484575 GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
391 GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1484640 GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
456 GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
1484705 CCATTGACTG
521 CCATTGACTG
1484715 CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATCGAGCTA
1 CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATCGAGCTA
1484780 AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAAT
66 AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAAT
1484845 GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
131 GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
1484910 GACATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
196 GACATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
1484975 CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
261 CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
1485040 ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
326 ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
1485105 GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
391 GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1485170 GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
456 GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
1485235 CCATTGACTG
521 CCATTGACTG
1485245 CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATCGAGCTA
1 CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATCGAGCTA
*
1485310 AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAAGGGAAAAGTGGACAAT
66 AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAAT
1485375 GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
131 GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
1485440 GACATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
196 GACATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
1485505 CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
261 CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
1485570 ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
326 ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
1485635 GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
391 GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1485700 GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
456 GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
1485765 CCATTGACT
521 CCATTGACT
1485774 TGTGGGCTTT
Statistics
Matches: 1056, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
530 1056 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (530 bp):
CAATACTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCAATTCAAGGCCAACGACATCGAGCTA
AGGGAAAAGCGGATAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAAT
GTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAACAATGTGCTGCTTCAAGGCCAGC
GACATTGAGCTAATAAAGGTGCCAATATGCTGATTCAATGCTAGTGATATAGGACTTTAAGATGA
CAAAAGTGGTAATTTAAAAAGGGTTGCCATCGACTTGCGTGGGCTTTTAAAAAAAAGTGCCACTA
ACTTATGTGGGCTTTAAAGCCACCGACTTATGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGT
GCTTTGAAGGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
GGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTA
CCATTGACTG
Found at i:1485350 original size:48 final size:48
Alignment explanation
Indices: 1485275--1485452 Score: 243
Period size: 48 Copynumber: 3.8 Consensus size: 48
1485265 AGAGGAGTGC
** * * *
1485275 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGCGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
1485323 TAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
1485371 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGTGAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
1485417 CAATGTGCTGCTTCAAGGCCAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1485453 TAAAGGTGCC
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
46 42 0.36
48 75 0.64
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:1485397 original size:25 final size:25
Alignment explanation
Indices: 1485369--1485443 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
1485359 GGGAAAAGTG
1485369 GACAATGTGCTGATTCAAGGCCAGC
1 GACAATGTGCTGATTCAAGGCCAGC
* * * * *
1485394 GACATTGAGCT-AATAAAGG--TG-
1 GACAATGTGCTGATTCAAGGCCAGC
* *
1485415 AACAATGTGCTGCTTCAAGGCCAGC
1 GACAATGTGCTGATTCAAGGCCAGC
1485440 GACA
1 GACA
1485444 TTGAGCTAAT
Statistics
Matches: 33, Mismatches: 13, Indels: 8
0.61 0.24 0.15
Matches are distributed among these distances:
21 8 0.24
22 6 0.18
24 7 0.21
25 12 0.36
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (25 bp):
GACAATGTGCTGATTCAAGGCCAGC
Found at i:1485412 original size:24 final size:24
Alignment explanation
Indices: 1485385--1485458 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
1485375 GTGCTGATTC
1485385 AAGGCCAGCGACATTGAGCTAATA
1 AAGGCCAGCGACATTGAGCTAATA
** * * *
1485409 AAGGTGAAC-A-ATGTGCTGCT--TC
1 AAGGCCAGCGACAT-TG-AGCTAATA
1485431 AAGGCCAGCGACATTGAGCTAATA
1 AAGGCCAGCGACATTGAGCTAATA
1485455 AAGG
1 AAGG
1485459 TGCCAATATG
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
22 12 0.35
23 6 0.18
24 16 0.47
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
AAGGCCAGCGACATTGAGCTAATA
Found at i:1485437 original size:46 final size:45
Alignment explanation
Indices: 1485275--1485477 Score: 219
Period size: 48 Copynumber: 4.4 Consensus size: 45
1485265 AGAGGAGTGC
** * * *
1485275 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGCG-GA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA---TAAAG-GTGA
* * * *
1485323 TAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGT-GA
1485371 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTG-A
* *
1485417 CAATGTGCTGCTTCAAGGCCAGCGACATTGAGCTAATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGA
*
1485462 CAATATGCTGATTCAA
1 CAATGTGCTGATTCAA
1485478 TGCTAGTGAT
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
45 15 0.11
46 50 0.37
47 5 0.04
48 66 0.49
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.21
Consensus pattern (45 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGA
Found at i:1486179 original size:227 final size:226
Alignment explanation
Indices: 1485600--1486390 Score: 951
Period size: 227 Copynumber: 3.5 Consensus size: 226
1485590 CACCGACTTA
* * * * * * *
1485600 TGTGGGCTTTGAAAGGGGATGCCAATGACTTGTGTGCTTTGAAGGGGTACCACTGACTTGTGGGC
1 TGTGGGCTTTGAAA--GGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC
* * * **
1485665 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA-AGGGTGCCACTGATTTGTGTGGGCTTTG-A
64 TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAGA-GATGCCACT-AAAT-TGTGGGCTTTGAA
* * * * * ** * *
1485728 AAGGGCATGCCACTGACTTGTGTGTTTTGAAGGGGTACCATTGACTTGTGGGCTTTGAAAGGGTG
126 AAGAG-TTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
* * * * **
1485793 CCATTGACTTGTGGCCATTGAAAGGGTGCCACTGTCT
190 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
* ** *
1485830 TGTGGGCTTT-AGAAGGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTG
1 TGTGGGCTTTGA-AAGGATGCCACT-AACT-TGTGGGCTTTGAAA-GG-ATGCCACTAACTTGTG
* * * * *
1485894 GGCTTTGAAAGGGTGCCACTAACTTGTGGTCTTTTGAAGAGATGCCATTGACTTGTGGGCTTTGA
61 GGCTTTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAGAGATGCCACTAAATTGTGGGCTTTGA
* *
1485959 AAAGAGTTGCCACCGACTTTTGGGCTTTGAAAAGGTGCCACCGACTTGTGGGCTTT-AAAGGGGT
125 AAAGAGTTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-GGGT
* *
1486023 ACCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
189 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
* * *
1486061 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGTTTTGAAATGATGCCACTAACTTGTGTGCTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* * *
1486126 TGAAAGGATGCCACTAACTTGTGGTCTTTTGAAGAGATGCCACTAAATTGTGGGCATTGAAATGA
66 TGAAAGGATGCCACTAACTTGTGGGC-TTTGAAGAGATGCCACTAAATTGTGGGCTTTGAAAAGA
* *
1486191 GTTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCGCT
130 GTTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
*
1486256 AACTTGTGGGCTTTGAAAGGATGCCACTAACT
195 GACTTGTGGGCTTTGAAAGGATGCCACTAACT
* *
1486288 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGTTTTGAAAGGATGCCACTAACTTGTGGGTTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* *
1486353 TGAAAGGATGCCACTGACCTGTGGGCTTTGAAGAGATG
66 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAGAGATG
1486391 AACATTTTAG
Statistics
Matches: 489, Mismatches: 61, Indels: 26
0.85 0.11 0.05
Matches are distributed among these distances:
226 12 0.02
227 249 0.51
228 12 0.02
229 15 0.03
230 29 0.06
231 108 0.22
232 50 0.10
233 13 0.03
234 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (226 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
TGAAAGGATGCCACTAACTTGTGGGCTTTGAAGAGATGCCACTAAATTGTGGGCTTTGAAAAGAG
TTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTTGAAAGGATGCCACTAACT
Found at i:1486390 original size:28 final size:28
Alignment explanation
Indices: 1485600--1486384 Score: 844
Period size: 28 Copynumber: 27.5 Consensus size: 28
1485590 CACCGACTTA
*
1485600 TGTGGGCTTTGAAAGGGGATGCCAATGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* * * *
1485630 TGTGTGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1485658 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1485686 TGTGGGCTTTGAAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
1485715 GTGTGGGCTTTGAAAGGGCATGCCACTGACT
1 -TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* * * * * *
1485746 TGTGTGTTTTGAAGGGGTACCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1485774 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1485802 TGTGGCCATTGAAAGGGTGCCACTGTCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1485830 TGTGGGCTTT-AGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGA-AAGGATGCCACTGA-CT
1485859 GTGTGGGCTTTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* *
1485890 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1485918 TGTGGTCTTTTG-AAGAGATGCCATTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
* *
1485947 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
1485977 TTTGGGCTTTGAAAAGG-TGCCACCGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
1486005 TGTGGGCTTT-AAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
1486033 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1486061 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1486089 TGTGGGTTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1486117 TGTGTGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
1486145 TGTGGTCTTTTG-AAGAGATGCCACTAAAT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
* * *
1486174 TGTGGGCATTGAAATGAGTTGCCACCGACT
1 TGTGGGCTTTGAAA-G-GATGCCACTGACT
1486204 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
1486232 TGTGGGCTTTGAAAGGATGCCGCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1486260 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1486288 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1486316 TGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1486344 TGTGGGTTTTGAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1486372 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
1486385 GAGATGAACA
Statistics
Matches: 660, Mismatches: 72, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.00
27 8 0.01
28 452 0.68
29 55 0.08
30 114 0.17
31 10 0.02
32 18 0.03
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1499942 original size:91 final size:91
Alignment explanation
Indices: 1499761--1500008 Score: 370
Period size: 91 Copynumber: 2.7 Consensus size: 91
1499751 TTTTAACTAG
* **
1499761 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGAAAAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAA-ACAGAATGTATCGATACA
*
1499826 TTGAAAAATGTATCGATACATTCATAC
65 TTCAAAAATGTATCGATACATTCATAC
*
1499853 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCGATACAT
* *
1499918 TCATACATGTATCGATACATTCATAC
66 TCAAAAATGTATCGATACATTCATAC
* * * * * *
1499944 ATGTATCGATATATTCATACATGTATCGATATATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCGATACAT
1500009 CTGGGTAAAA
Statistics
Matches: 142, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 99 0.70
92 43 0.30
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCGATACAT
TCAAAAATGTATCGATACATTCATAC
Found at i:1499977 original size:20 final size:20
Alignment explanation
Indices: 1499813--1499974 Score: 144
Period size: 20 Copynumber: 7.5 Consensus size: 20
1499803 AAAAGACAGA
* * *
1499813 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTCATAC
1499833 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCATAC
* * *
1499853 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTCATAC
* *
1499873 ATGTATCGATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACA--T---T-----CATA-C
1499904 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCATAC
1499924 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCATAC
*
1499944 ATGTATCGATATATTCATAC
1 ATGTATCGATACATTCATAC
1499964 ATGTATCGATA
1 ATGTATCGATA
1499975 TATCTGGGTA
Statistics
Matches: 120, Mismatches: 11, Indels: 22
0.78 0.07 0.14
Matches are distributed among these distances:
20 97 0.81
21 3 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 14 0.12
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTCATAC
Found at i:1500744 original size:3 final size:3
Alignment explanation
Indices: 1500738--1500773 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1500728 TTTTTTTTTC
*
1500738 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1500774 CTACTACTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1501488 original size:9 final size:9
Alignment explanation
Indices: 1501474--1501568 Score: 94
Period size: 9 Copynumber: 10.6 Consensus size: 9
1501464 GGAGATGTTT
1501474 AAAAAAATG
1 AAAAAAATG
1501483 AAAAAAAT-
1 AAAAAAATG
1501491 AAAAAAA-G
1 AAAAAAATG
1501499 AAAAGAAA-G
1 AAAA-AAATG
1501508 AAAGAAAATG
1 AAA-AAAATG
1501518 AAAAAAAT-
1 AAAAAAATG
1501526 AAAAAAA-G
1 AAAAAAATG
1501534 AAAAGAAA-G
1 AAAA-AAATG
1501543 AAAGAAAATG
1 AAA-AAAATG
1501553 AACAAAAATG
1 AA-AAAAATG
1501563 TAAAAA
1 -AAAAA
1501569 TAAATAAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 19
0.80 0.00 0.20
Matches are distributed among these distances:
8 22 0.29
9 33 0.43
10 18 0.24
11 3 0.04
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:1501523 original size:35 final size:35
Alignment explanation
Indices: 1501477--1501561 Score: 161
Period size: 35 Copynumber: 2.4 Consensus size: 35
1501467 GATGTTTAAA
1501477 AAAATGAAAAAAATAAAAAAAGAAAAGAAAGAAAG
1 AAAATGAAAAAAATAAAAAAAGAAAAGAAAGAAAG
1501512 AAAATGAAAAAAATAAAAAAAGAAAAGAAAGAAAG
1 AAAATGAAAAAAATAAAAAAAGAAAAGAAAGAAAG
1501547 AAAATGAACAAAAAT
1 AAAATGAA-AAAAAT
1501562 GTAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 43 0.88
36 6 0.12
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.07
Consensus pattern (35 bp):
AAAATGAAAAAAATAAAAAAAGAAAAGAAAGAAAG
Found at i:1502082 original size:19 final size:20
Alignment explanation
Indices: 1502055--1502096 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1502045 GTTTTATTCA
*
1502055 TTTCAATTTGTTTGTTTGGT
1 TTTCAATTTCTTTGTTTGGT
*
1502075 TTTC-ATTTCTTTGTTTTGT
1 TTTCAATTTCTTTGTTTGGT
1502094 TTT
1 TTT
1502097 GTTTTTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.71
Consensus pattern (20 bp):
TTTCAATTTCTTTGTTTGGT
Found at i:1502103 original size:25 final size:24
Alignment explanation
Indices: 1502051--1502101 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1502041 TTATGTTTTA
1502051 TTCATTTCAATTTGTTTGTTTGGTT
1 TTCATTTC-ATTTGTTTGTTTGGTT
*
1502076 TTCATTTC-TTTGTTTTGTTTTGTT
1 TTCATTTCATTTG-TTTGTTTGGTT
1502100 TT
1 TT
1502102 TCTTAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 12 0.50
25 8 0.33
ACGTcount: A:0.08, C:0.08, G:0.14, T:0.71
Consensus pattern (24 bp):
TTCATTTCATTTGTTTGTTTGGTT
Found at i:1502232 original size:11 final size:11
Alignment explanation
Indices: 1502203--1502266 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
1502193 TCTTAGAGGT
*
1502203 TTTTA-ATTAC
1 TTTTATATTAA
1502213 TTTTA-ATTAA
1 TTTTATATTAA
*
1502223 TTTTATATTAG
1 TTTTATATTAA
*
1502234 TTCTATATATTTA
1 TT-T-TATATTAA
* *
1502247 GTTTATATTTA
1 TTTTATATTAA
1502258 TTTTATATT
1 TTTTATATT
1502267 GGTTATATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 14 0.31
11 22 0.49
12 2 0.04
13 7 0.16
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:1502276 original size:35 final size:35
Alignment explanation
Indices: 1502214--1502301 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
1502204 TTTAATTACT
* * *
1502214 TTTA-ATTAATTTTATATTAGTTCTATATATTTAG
1 TTTATATTTATTTTATATTAGTTATATATAATTAG
* *
1502248 TTTATATTTATTTTATATTGGTTATATATAATTAT
1 TTTATATTTATTTTATATTAGTTATATATAATTAG
1502283 TTTATATTTAAATTTTATA
1 TTTATATTT--ATTTTATA
1502302 GTTCTTCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.09
35 34 0.74
37 8 0.17
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (35 bp):
TTTATATTTATTTTATATTAGTTATATATAATTAG
Found at i:1502695 original size:15 final size:15
Alignment explanation
Indices: 1502675--1502709 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1502665 ACTCCTTGGT
*
1502675 TTTATGTTTTTAGTA
1 TTTATGTTTTTAATA
1502690 TTTATGTTTTTAATA
1 TTTATGTTTTTAATA
1502705 TTTAT
1 TTTAT
1502710 TATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (15 bp):
TTTATGTTTTTAATA
Found at i:1512039 original size:24 final size:24
Alignment explanation
Indices: 1512006--1512053 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1511996 ACAATGTATC
*
1512006 GATACATGAACAGTGATGAATAGT
1 GATACATGAACAGTGATAAATAGT
* * *
1512030 GATACGTGAATAGTTATAAATAGT
1 GATACATGAACAGTGATAAATAGT
1512054 AAGCAGTGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (24 bp):
GATACATGAACAGTGATAAATAGT
Found at i:1512199 original size:13 final size:13
Alignment explanation
Indices: 1512181--1512206 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1512171 CTGCCAGTTT
1512181 ATGTATCGATACA
1 ATGTATCGATACA
1512194 ATGTATCGATACA
1 ATGTATCGATACA
1512207 TCTGGGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1513418 original size:40 final size:40
Alignment explanation
Indices: 1513326--1513445 Score: 111
Period size: 40 Copynumber: 3.0 Consensus size: 40
1513316 ATGTTACTTT
* *
1513326 ACCC-TTCTAACTTGTTGACTTGTAGGTTTTCTCCTAGTTA
1 ACCCATTCTAACTTGTTGACTTGTAGGTTTTC-CTTGGTTA
* *
1513366 ACCCCTT-AAACTTGTTGACTTGTAGGTTTTGCCTTGGTTA
1 ACCCATTCTAACTTGTTGACTTGTAGGTTTT-CCTTGGTTA
* * *
1513406 A-CTATTCTAACTTAGTTGACTATATCGGTTTTACCTTGGT
1 ACCCATTCTAACTT-GTTGACT-TGTAGGTTTT-CCTTGGT
1513446 CAATCCCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
39 3 0.05
40 38 0.58
41 10 0.15
42 15 0.23
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (40 bp):
ACCCATTCTAACTTGTTGACTTGTAGGTTTTCCTTGGTTA
Found at i:1513981 original size:67 final size:66
Alignment explanation
Indices: 1513793--1514060 Score: 179
Period size: 65 Copynumber: 4.1 Consensus size: 66
1513783 TTAGGTTTTG
* * *** * * **
1513793 ACTTAAGTTTT-GCCTTAGTCACCCTTAG-GTGACTATATCACTTTCGCCTAAGTCAACC-CCTT
1 ACTTAGGTTTTGGCC-TAGTCACCTTTAGTG-GACTATATTGGTTTCACCTTAGTCAACCTATTT
*
1513855 TCA
64 TCT
* * ** * * *
1513858 ACTTAGGTTTT-GCCTTGATCATCTTTAGTTGG-CTATATTGGTTTTGCCCTAATCAACCTTTTT
1 ACTTAGGTTTTGGCCTAG-TCACCTTTAG-TGGACTATATTGGTTTCACCTTAGTCAACC-TATT
*
1513921 TTTT
63 TTCT
*
1513925 ACTTAGGTTTTGGCCTAGTCACCTTTAGTGGACTATATTGGTTTCACCTTGGTCAACCTATTTTC
1 ACTTAGGTTTTGGCCTAGTCACCTTTAGTGGACTATATTGGTTTCACCTTAGTCAACCTATTTTC
1513990 T
66 T
* * * * * * * ** *
1513991 AC-TAAGCTTCGCCCTGGTCACCCTTAGTTGACTATATCAGTTTCACCTTAGTCAATCTATTTTC
1 ACTTAGGTTTTGGCCTAGTCACCTTTAGTGGACTATATTGGTTTCACCTTAGTCAACCTATTTTC
*
1514055 A
66 T
1514056 ACTTA
1 ACTTA
1514061 AGTTCTACCT
Statistics
Matches: 159, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
64 2 0.01
65 93 0.58
66 14 0.09
67 45 0.28
68 5 0.03
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (66 bp):
ACTTAGGTTTTGGCCTAGTCACCTTTAGTGGACTATATTGGTTTCACCTTAGTCAACCTATTTTC
T
Found at i:1516903 original size:47 final size:47
Alignment explanation
Indices: 1516852--1516958 Score: 214
Period size: 47 Copynumber: 2.3 Consensus size: 47
1516842 GCTGATTCAT
1516852 GGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGTTGAGACAA
1 GGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGTTGAGACAA
1516899 GGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGTTGAGACAA
1 GGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGTTGAGACAA
1516946 GGCCAGCGACATT
1 GGCCAGCGACATT
1516959 GGGCTTAGGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (47 bp):
GGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGTTGAGACAA
Found at i:1517069 original size:48 final size:48
Alignment explanation
Indices: 1516836--1517430 Score: 256
Period size: 48 Copynumber: 12.8 Consensus size: 48
1516826 CGAAGAATGA
* * * * *
1516836 CAATATGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTTATTCAAGGCCAGCGACATT-GGCTTAAAGATGAAGGTGC
* ** * * *
1516883 CAATGTG-TTGAGACAAGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTT-ATTCAAGGCCAGCGACATT-GGCTTAAAGATGAAGGTGC
* ** * * *
1516930 CAATGTG-TTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTT-ATTCAAGGCCAGCGACATT-GGCTTA--AA-GATGAAGGTGC
* * * * * * *
1516982 TAATATGCTAATTCAAAGCCAACGATATCAGACTTAAAGATGAAGGTGC
1 CAATATGCTTATTCAAGGCCAGCGACAT-TGGCTTAAAGATGAAGGTGC
* *
1517031 CAA-GTGCTTATTCAAGGCTAGCGACATTGGCCTTAAAGATGAAGGTGC
1 CAATATGCTTATTCAAGGCCAGCGACATTGG-CTTAAAGATGAAGGTGC
* * *
1517079 CAATATGCTAATTCAAGGCCAGCGATATTGGGTT-----T----GTGC
1 CAATATGCTTATTCAAGGCCAGCGACATTGGCTTAAAGATGAAGGTGC
* * *
1517118 CAATGTG-TTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTT-ATTCAAGGCCAGCGACATTGG-CTTAAAGATGAAGGTGC
* *
1517166 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGC
1 CAATATGCTTATTCAAGGCCAGCGACATT-GGCTTAAAGATGAAGGTGC
* * * * *
1517205 TAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATATGCTTATTCAAGGCCAGCGACATTGG-CTTAAAGATGAAGGTGC
* * * ** * *
1517253 CAATATGCTGATTTAAGGCCAGCGATATTGGGCTT-GTGATAAAGGTAC
1 CAATATGCTTATTCAAGGCCAGCGACATT-GGCTTAAAGATGAAGGTGC
* * *
1517301 CAATATGCTGATGCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTTATTCAAGGCCAGCGACATTGG-CTTAAAGATGAAGGTGC
* * * **
1517344 CAATGTGCTGATTCAAGG-TAGCGACATTGGTCTTAAAGACAAAGGTGC
1 CAATATGCTTATTCAAGGCCAGCGACATTGG-CTTAAAGATGAAGGTGC
* * *
1517392 CAATATGCTGATTCAATGCCAGCGATATTGGACTTAAAG
1 CAATATGCTTATTCAAGGCCAGCGACATTGG-CTTAAAG
1517431 GTGCCACGGA
Statistics
Matches: 433, Mismatches: 70, Indels: 88
0.73 0.12 0.15
Matches are distributed among these distances:
38 3 0.01
39 59 0.14
40 3 0.01
41 1 0.00
42 13 0.03
43 23 0.05
45 1 0.00
46 3 0.01
47 80 0.18
48 158 0.36
49 57 0.13
50 5 0.01
52 26 0.06
53 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATATGCTTATTCAAGGCCAGCGACATTGGCTTAAAGATGAAGGTGC
Found at i:1517132 original size:39 final size:39
Alignment explanation
Indices: 1517075--1517235 Score: 135
Period size: 39 Copynumber: 3.9 Consensus size: 39
1517065 AAAGATGAAG
* *
1517075 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGTTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTT
* * *
1517114 GTGCCAATGTGTTGATTCAAGGCTAGCGACATT-GGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGT-TT
* *
1517153 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTT
* * *
1517201 ATGCTAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
1517236 TCTTAGAGAC
Statistics
Matches: 97, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
38 3 0.03
39 61 0.63
48 31 0.32
49 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGTTT
Found at i:1517181 original size:87 final size:87
Alignment explanation
Indices: 1517027--1517290 Score: 406
Period size: 87 Copynumber: 3.0 Consensus size: 87
1517017 AAAGATGAAG
* * *
1517027 GTGCCAA-GTGCTT-ATTCAAGGCTAGCGACATTGGCCTTAAAGATGAAGGTGCCAATATGCTAA
1 GTGCCAATGTG-TTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGA
*
1517090 TTCAAGGCCAGCGATATTGGGTTT
64 TTCAAGGCCAGCGATATTGGGCTT
1517114 GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1517179 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * *
1517201 ATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1517266 TAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
1517288 GTG
1 GTG
1517291 ATAAAGGTAC
Statistics
Matches: 164, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
87 132 0.80
88 32 0.20
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (87 bp):
GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1517277 original size:135 final size:138
Alignment explanation
Indices: 1517114--1517430 Score: 419
Period size: 135 Copynumber: 2.3 Consensus size: 138
1517104 TATTGGGTTT
* * * * * * *
1517114 GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTACCAATATGCTGAT
* * *
1517178 TCAAGGCCAGCGATATTGGGCTT-A-TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
66 GCAAGGCCAGCGATATTGGACTTAAGTGCCAATGTGCTGATTCAAGG-CAGCGACATTGGTCTTA
*
1517241 GAGAC-AAG
130 AAGACAAAG
* * **
1517249 GTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTT-GTGATAAAGGTACCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTACCAATATGCTGAT
*
1517313 GCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGTAGCGACATTGGTCTT
66 GCAAGGCCAGCGATATTGGACTT-AA-GTGCCAATGTGCTGATTCAAGGCAGCGACATTGGTCTT
1517378 AAAGACAAAG
129 AAAGACAAAG
*
1517388 GTGCCAATATGCTGATTCAATGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1517431 GTGCCACGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
134 2 0.01
135 72 0.46
137 1 0.01
138 20 0.13
139 59 0.38
140 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (138 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTACCAATATGCTGAT
GCAAGGCCAGCGATATTGGACTTAAGTGCCAATGTGCTGATTCAAGGCAGCGACATTGGTCTTAA
AGACAAAG
Found at i:1517388 original size:91 final size:91
Alignment explanation
Indices: 1517210--1517436 Score: 276
Period size: 91 Copynumber: 2.4 Consensus size: 91
1517200 TATGCTAATG
* * *
1517210 TGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTTAAGGCCAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATATGCTGATTCAAGGCCAG
* ** *
1517275 CGATATTGGGCTTGTGATAAAGGTACCAATA
61 CGACATTGGGCTTAAGACAAAGGTACCAATA
* * *
1517306 TGCTGATGCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG-TAGCGACA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA
* *
1517370 TTGGTCTTAAAGACAAAGGTGCCAATA
66 TTGGGCTT-AAGACAAAGGTACCAATA
*
1517397 TGCTGATTCAATGCCAGCGATATTGGACTTAAAGGTGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCA
1517437 CGGAGTTATG
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
90 13 0.11
91 75 0.65
92 1 0.01
96 27 0.23
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (91 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA
TTGGGCTTAAGACAAAGGTACCAATA
Found at i:1517661 original size:31 final size:30
Alignment explanation
Indices: 1517589--1517769 Score: 193
Period size: 30 Copynumber: 5.9 Consensus size: 30
1517579 TTTGAAAAGA
* * * *
1517589 AAAAGGTGCCACTAAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
1517619 ATAAGATGCCACTGAGTCGTGGACTCTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
1517649 AAGAGATTGCCACTGAGTCGTAGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AG
*
1517681 AAAAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
1517712 AAAAGGATGCCACTGAGTCGTGGACTTAGA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* * *
1517742 AAAGAGATGCTATTGAGTTGTGGACTTT
1 AAA-AGATGCCACTGAGTCGTGGACTTT
1517770 TGAAGGTTGC
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
30 50 0.39
31 49 0.38
32 29 0.23
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:1517726 original size:32 final size:31
Alignment explanation
Indices: 1517573--1517774 Score: 203
Period size: 31 Copynumber: 6.4 Consensus size: 31
1517563 CAACAAAGTT
* *
1517573 GTGGACTTTGAAAAGAAAAAGGTGCCACTAAGTC
1 GTGGACTTTG--AAG-AAAAGATGCCACTGAGTC
* * *
1517607 ATGGACTTTG-GGATAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAGATGCCACTGAGTC
* *
1517637 GTGGACTCTG-AGAAGAGATTGCCACTGAGTC
1 GTGGACTTTGAAGAAAAGA-TGCCACTGAGTC
*
1517668 GTAGACTTTGAAGAAAAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAAGATGCCACTGAGTC
*
1517699 ATGGACTTTGAAGAAAAGGATGCCACTGAGTC
1 GTGGACTTTGAAGAAAA-GATGCCACTGAGTC
* * * * *
1517731 GTGGACTTAGAA-AAGAGATGCTATTGAGTT
1 GTGGACTTTGAAGAAAAGATGCCACTGAGTC
1517761 GTGGACTTTTGAAG
1 GTGGAC-TTTGAAG
1517775 GTTGCCACTG
Statistics
Matches: 141, Mismatches: 22, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
30 45 0.32
31 56 0.40
32 31 0.22
34 9 0.06
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (31 bp):
GTGGACTTTGAAGAAAAGATGCCACTGAGTC
Found at i:1517819 original size:29 final size:28
Alignment explanation
Indices: 1517759--1518033 Score: 239
Period size: 29 Copynumber: 9.6 Consensus size: 28
1517749 TGCTATTGAG
* *
1517759 TTGTGGACTTTTG-AAGGTTGCCACTGAC
1 TTGTGGGC-TTTGAAAGGGTGCCACTGAC
*
1517787 TTGTGGGCTTTGAAAGGGGTGCCACCGAC
1 TTGTGGGCTTTGAAA-GGGTGCCACTGAC
* * *
1517816 TTGTGGGATTTTAAAGGTTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
1517844 TTGTGGGCTTTGAAAGGGCTGCCACCGAC
1 TTGTGGGCTTTGAAAGGG-TGCCACTGAC
* * * *
1517873 TTGTCGACTTCTG-AAGGTTGCCACTAAC
1 TTGTGGGCTT-TGAAAGGGTGCCACTGAC
*
1517901 TTGTGGGCTTTGAAAATGGTGCCACTGAC
1 TTGTGGGCTTTG-AAAGGGTGCCACTGAC
* * *
1517930 TTGTGGGCTTTTGAAAAGATGCCACTAAC
1 TTGTGGGC-TTTGAAAGGGTGCCACTGAC
*** * *
1517959 TTCCAGGTTTTAAAAAGGGTGCCACTGAC
1 TTGTGGGCTTT-GAAAGGGTGCCACTGAC
* * *
1517988 TTGTGGGTTTTTGAAAAGATGCCACTGAC
1 TTGTGGG-CTTTGAAAGGGTGCCACTGAC
* *
1518017 TTGTGAGCTTTGGAAGG
1 TTGTGGGCTTTGAAAGG
1518034 TAAGGAATGT
Statistics
Matches: 196, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
27 6 0.03
28 61 0.31
29 119 0.61
30 10 0.05
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (28 bp):
TTGTGGGCTTTGAAAGGGTGCCACTGAC
Found at i:1517833 original size:57 final size:57
Alignment explanation
Indices: 1517759--1518033 Score: 275
Period size: 57 Copynumber: 4.8 Consensus size: 57
1517749 TGCTATTGAG
*
1517759 TTGT-GGACTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACCGAC
1 TTGTGGGA-TTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACCGAC
*
1517816 TTGTGGGATTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGCTGCCACCGAC
1 TTGTGGGATTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACCGAC
* * * * ** *
1517873 TTGT-CGACTTCTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAATGGTGCCACTGAC
1 TTGTGGGA-TTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACCGAC
* * * * *** * * * *
1517930 TTGTGGGCTTTTGAAAAGATGCCACTAACTTCCAGGTTTTAAAAAGGGTGCCACTGAC
1 TTGTGGGATTTT-AAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACCGAC
* * * * *
1517988 TTGTGGGTTTTTGAAAAGATGCCACTGACTTGTGAGCTTTGGAAGG
1 TTGTGGGATTTT-AAAGGTTGCCACTGACTTGTGGGCTTTGAAAGG
1518034 TAAGGAATGT
Statistics
Matches: 182, Mismatches: 32, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
56 2 0.01
57 104 0.57
58 76 0.42
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (57 bp):
TTGTGGGATTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACCGAC
Found at i:1518435 original size:37 final size:37
Alignment explanation
Indices: 1518393--1518477 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
1518383 AAAGATGAAG
*
1518393 CACAAATGCATCATGGAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1518430 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1518467 CACAAATGCAT
1 CACAAATGCAT
1518478 GATTATGGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:1519547 original size:23 final size:24
Alignment explanation
Indices: 1519502--1519546 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
1519492 TCCAGACCCT
1519502 TTTTGTTGTTTTTTTTTCATTTTG
1 TTTTGTTGTTTTTTTTTCATTTTG
1519526 TTTT-TTGTTTTTTTTT-ATTTT
1 TTTTGTTGTTTTTTTTTCATTTT
1519547 TTTGCGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.84
Consensus pattern (24 bp):
TTTTGTTGTTTTTTTTTCATTTTG
Found at i:1523993 original size:13 final size:13
Alignment explanation
Indices: 1523975--1524000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1523965 CAATTTTTTG
1523975 TGTATCGATACAT
1 TGTATCGATACAT
1523988 TGTATCGATACAT
1 TGTATCGATACAT
1524001 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1524086 original size:20 final size:20
Alignment explanation
Indices: 1524061--1524133 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1524051 ATCTTTTTTT
1524061 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1524081 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1524102 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1524122 ATGTATCGATAC
1 ATGTATCGATAC
1524134 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1524112 original size:41 final size:42
Alignment explanation
Indices: 1524039--1524133 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1524029 CTGCCAAGAA
*
1524039 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1524081 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1524122 ATGTATCGATAC
1 ATGTATCGATAC
1524134 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1524770 original size:16 final size:16
Alignment explanation
Indices: 1524739--1524784 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
1524729 CTCTCCTTTG
1524739 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
1524757 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
1524773 TCTCCCCCTTAA
1 TCTCCCCCTTAA
1524785 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:1526608 original size:13 final size:13
Alignment explanation
Indices: 1526590--1526628 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1526580 ATAATCACCC
*
1526590 TGTATCGATACAG
1 TGTATCGATACAA
1526603 TGTATCGATACAA
1 TGTATCGATACAA
1526616 TGTATCGATACAA
1 TGTATCGATACAA
1526629 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1526639 original size:20 final size:20
Alignment explanation
Indices: 1526614--1526692 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1526604 GTATCGATAC
1526614 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
1526634 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
1526659 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
1526678 ACATGTATCGATACA
1 A-ATGTATCGATACA
1526693 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:1528726 original size:15 final size:15
Alignment explanation
Indices: 1528706--1528736 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1528696 ATTTCGTTTG
*
1528706 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1528721 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1528736 G
1 G
1528737 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1532816 original size:13 final size:13
Alignment explanation
Indices: 1532798--1532823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1532788 CAATTTTTTG
1532798 TGTATCGATACAT
1 TGTATCGATACAT
1532811 TGTATCGATACAT
1 TGTATCGATACAT
1532824 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1532909 original size:20 final size:20
Alignment explanation
Indices: 1532884--1532956 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1532874 ATCTTTTTTT
1532884 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1532904 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1532925 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1532945 ATGTATCGATAC
1 ATGTATCGATAC
1532957 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1532935 original size:41 final size:42
Alignment explanation
Indices: 1532862--1532956 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1532852 CTGCCAAGAA
*
1532862 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1532904 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1532945 ATGTATCGATAC
1 ATGTATCGATAC
1532957 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1538973 original size:52 final size:52
Alignment explanation
Indices: 1538895--1539075 Score: 290
Period size: 52 Copynumber: 3.5 Consensus size: 52
1538885 CGAAATATGA
* ***
1538895 AAATTTGCCTGCATGTATTGATACATTTCCCAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
1538947 AAATTTGCCTGCATGTATCGATACATTTTTTAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
1538999 AAATTTGCCTGCATGTATCAATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
1539051 AAATTTGCCTACATGTATAGATACA
1 AAATTTGCCTGCATGTATCGATACA
1539076 AAGATCAGTG
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1539102 original size:13 final size:13
Alignment explanation
Indices: 1539084--1539108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1539074 CAAAGATCAG
1539084 TGTATCGATACAA
1 TGTATCGATACAA
1539097 TGTATCGATACA
1 TGTATCGATACA
1539109 TTTGAGTAAT
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:1539189 original size:32 final size:33
Alignment explanation
Indices: 1539149--1539212 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 33
1539139 AGTAGCTTAT
1539149 ATTGTATCGATACAAAAC-TTATGTATCGATGC
1 ATTGTATCGATACAAAACTTTATGTATCGATGC
*
1539181 ATTGTATCGATACAACACTTTTATGTATCGAT
1 ATTGTATCGATACAAAAC-TTTATGTATCGAT
1539213 ACAAATCGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.59
34 12 0.41
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATGC
Found at i:1547174 original size:13 final size:13
Alignment explanation
Indices: 1547156--1547183 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1547146 ATACAAAGAT
1547156 CAATGTATCGATA
1 CAATGTATCGATA
1547169 CAATGTATCGATA
1 CAATGTATCGATA
1547182 CA
1 CA
1547184 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1547338 original size:20 final size:19
Alignment explanation
Indices: 1547313--1547350 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1547303 GTTGGGACCT
1547313 TATATCGATACATTCTAGAA
1 TATATCGATACATT-TAGAA
1547333 TATATCGATACATTTAGA
1 TATATCGATACATTTAGA
1547351 CAAAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
TATATCGATACATTTAGAA
Found at i:1547789 original size:65 final size:65
Alignment explanation
Indices: 1547576--1547853 Score: 191
Period size: 66 Copynumber: 4.2 Consensus size: 65
1547566 AGGTGTCTAC
* * ** ** ** **
1547576 AGTCACCCTTAGTTAACTATATCAATTTCT-CTTTAATCAACCTCTTTTTGACTTAGGTTGAACC
1 AGTCACCCTTAGTTGACTATATCAGTTT-TGCCATGGTCAACC-CTTTTCAACTTAGGTTTCACC
1547640 CT
64 CT
** * * * * *
1547642 AGTCACCCTGGGTTGACTATACCATTTTTGCCATGGTTAACCCTTTTCGACTTAAAGTTTCACCC
1 AGTCACCCTTAGTTGACTATATCAGTTTTGCCATGGTCAACCCTTTTCAACTT-AGGTTTCACCC
1547707 T
65 T
* * *
1547708 AGTTACCCTTAGTTGACTATATCAGTTTTGCC-TGAGTCAGCCTTTTTCAACTTAGGTTTCACCC
1 AGTCACCCTTAGTTGACTATATCAGTTTTGCCATG-GTCAACCCTTTTCAACTTAGGTTTCACCC
1547772 T
65 T
* * ** *** * ** * *
1547773 GGTCACCCTTATTTGACTATATTGGTTTCATCTTGGTCATTGCCTTTTCGACTTAGGATTCACCC
1 AGTCACCCTTAGTTGACTATATCAGTTTTGCCATGGTCA-ACCCTTTTCAACTTAGGTTTCACCC
1547838 T
65 T
* *
1547839 AGTCATCCTAAGTTG
1 AGTCACCCTTAGTTG
1547854 GTCATATGTT
Statistics
Matches: 166, Mismatches: 41, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
65 52 0.31
66 114 0.69
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (65 bp):
AGTCACCCTTAGTTGACTATATCAGTTTTGCCATGGTCAACCCTTTTCAACTTAGGTTTCACCCT
Found at i:1547837 original size:66 final size:64
Alignment explanation
Indices: 1547619--1547853 Score: 197
Period size: 66 Copynumber: 3.6 Consensus size: 64
1547609 TAATCAACCT
* ** ** * * * *
1547619 CTTTTTGACTTAGGTTGAACCCTAGTCACCCTGGGTTGACTATACCATTTTTGCCATG-GTTAAC
1 CTTTTCGACTTAGGTTTCACCCTAGTCACCCTTAGTTGACTATATCAGTTTTGCC-TGAG-TCAG
1547683 C
64 C
* *
1547684 CTTTTCGACTTAAAGTTTCACCCTAGTTACCCTTAGTTGACTATATCAGTTTTGCCTGAGTCAGC
1 CTTTTCGACTT-AGGTTTCACCCTAGTCACCCTTAGTTGACTATATCAGTTTTGCCTGAGTCAGC
* * * ** *
1547749 CTTTTTCAACTTAGGTTTCACCCTGGTCACCCTTATTTGACTATATTGGTTTCAT-CTTG-GTCA
1 C-TTTTCGACTTAGGTTTCACCCTAGTCACCCTTAGTTGACTATATCAGTTT--TGCCTGAGTCA
1547812 TTGC
63 --GC
* * *
1547816 CTTTTCGACTTAGGATTCACCCTAGTCATCCTAAGTTG
1 CTTTTCGACTTAGGTTTCACCCTAGTCACCCTTAGTTG
1547854 GTCATATGTT
Statistics
Matches: 138, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
65 54 0.39
66 80 0.58
67 4 0.03
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.40
Consensus pattern (64 bp):
CTTTTCGACTTAGGTTTCACCCTAGTCACCCTTAGTTGACTATATCAGTTTTGCCTGAGTCAGC
Found at i:1550079 original size:20 final size:21
Alignment explanation
Indices: 1550049--1550091 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1550039 AAAAATGTTG
1550049 TTTGTTGATATGATGTT-AATT
1 TTTGTTGATATGAT-TTCAATT
1550070 TTTG-TGATATGATTTCAATT
1 TTTGTTGATATGATTTCAATT
1550090 TT
1 TT
1550092 GTCATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.58
Consensus pattern (21 bp):
TTTGTTGATATGATTTCAATT
Found at i:1550098 original size:19 final size:20
Alignment explanation
Indices: 1550056--1550098 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
1550046 TTGTTTGTTG
*
1550056 ATATGATGTTAATTTTTGTG
1 ATATGATGTTAATTTTTGTC
1550076 ATATGAT-TTCAA-TTTTGTC
1 ATATGATGTT-AATTTTTGTC
1550095 ATAT
1 ATAT
1550099 ATAATATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (20 bp):
ATATGATGTTAATTTTTGTC
Found at i:1550271 original size:21 final size:21
Alignment explanation
Indices: 1550246--1550287 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1550236 TTGTATTGAA
*
1550246 AATGTTTATTTGTTTCTTTTT
1 AATGTTTATGTGTTTCTTTTT
1550267 AATGTTTATGTGTTTCTTTTT
1 AATGTTTATGTGTTTCTTTTT
1550288 CTTGATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.69
Consensus pattern (21 bp):
AATGTTTATGTGTTTCTTTTT
Found at i:1550351 original size:110 final size:110
Alignment explanation
Indices: 1550158--1550357 Score: 337
Period size: 110 Copynumber: 1.8 Consensus size: 110
1550148 TTGATAAAGC
* *
1550158 ATGTTTATGTGTTTATTTTTCTTGATTTCATACAAGATCATGTTGATTTGAATTTGGTACAAATG
1 ATGTTTATGTGTTTATTTTTCTTGATTTCATACAAGATCATGTTAATTGGAATTTGGTACAAATG
1550223 AGATATATGATTATTGTATTGAAAATGTTTATTTGTTTCTTTTTA
66 AGATATATGATTATTGTATTGAAAATGTTTATTTGTTTCTTTTTA
* * * *
1550268 ATGTTTATGTGTTTCTTTTTCTTGATTTCATACAATATCATGTTAATTGGAGTTTGGTAGAAATG
1 ATGTTTATGTGTTTATTTTTCTTGATTTCATACAAGATCATGTTAATTGGAATTTGGTACAAATG
*
1550333 AGATGTATGATTATTGTATTGAAAA
66 AGATATATGATTATTGTATTGAAAA
1550358 ATTTTGGTGG
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 83 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (110 bp):
ATGTTTATGTGTTTATTTTTCTTGATTTCATACAAGATCATGTTAATTGGAATTTGGTACAAATG
AGATATATGATTATTGTATTGAAAATGTTTATTTGTTTCTTTTTA
Found at i:1558036 original size:31 final size:30
Alignment explanation
Indices: 1557978--1558036 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
1557968 ATCTTATTTG
* *
1557978 AATAAAATAATTATATAAAAATTATCAAAA
1 AATAAAATAACTATATAAAAATAATCAAAA
1558008 AATAAAATTAACTATAGT-AAAATAATCAA
1 AATAAAA-TAACTATA-TAAAAATAATCAA
1558037 TTTAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 17 0.68
32 1 0.04
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (30 bp):
AATAAAATAACTATATAAAAATAATCAAAA
Found at i:1562468 original size:19 final size:19
Alignment explanation
Indices: 1562424--1562479 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1562414 TTACCAGTTT
**
1562424 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1562444 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1562463 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1562480 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Done.