Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1726
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: 131349
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:1018 original size:53 final size:50
Alignment explanation
Indices: 945--1077 Score: 123
Period size: 53 Copynumber: 2.6 Consensus size: 50
935 GTGATAAGAT
* * **
945 GCCAATT-TTGATTCACGGCCAACGCT-ATTGGGCTT-AAGAATGGAAAAGG
1 GCCAATTGCTGATTCAAGGCCAA-GCTAATTGAACTTAAAG-ATGGAAAAGG
*
994 ATGTCAATGTGCTGATTCAAGGCC-AGCTACATTGAACTTAAAGATGGAAAAGG
1 --GCCAAT-TGCTGATTCAAGGCCAAGCTA-ATTGAACTTAAAGATGGAAAAGG
1047 GCCAATTGCTGATTCAAGGCC-AGCTATATTG
1 GCCAATTGCTGATTCAAGGCCAAGCTA-ATTG
1078 GACAAAGGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
50 24 0.34
51 13 0.19
52 2 0.03
53 28 0.40
54 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (50 bp):
GCCAATTGCTGATTCAAGGCCAAGCTAATTGAACTTAAAGATGGAAAAGG
Found at i:1158 original size:28 final size:28
Alignment explanation
Indices: 1126--1585 Score: 359
Period size: 29 Copynumber: 16.0 Consensus size: 28
1116 GACTTAGATG
* * *
1126 GAAAAGGTGCCACCGATTTGTGGGCTTC
1 GAAAAGGTGCCACTGACTTGTGGGCTTT
1154 GAAAAGGGTGCCACTGA-TTGTGGGCTTT
1 GAAAA-GGTGCCACTGACTTGTGGGCTTT
1182 G--AAGGTTGCCACTGACTTGTGGGCTTT
1 GAAAAGG-TGCCACTGACTTGTGGGCTTT
*
1209 -TAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGG-TGCCACTGACTTGTGGGC-TTT
**
1238 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 G-AAAAGGTGCCACTGACTTGTGGGC-TTT
* *
1268 GAACAGGTGCCACTAACTTGTGGGCTTT
1 GAAAAGGTGCCACTGACTTGTGGGCTTT
*
1296 -TAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGG-TGCCACTGACTTGTGGGC-TTT
**
1325 GAAAATATGCCACTGACTTGTGGGCTTT
1 GAAAAGGTGCCACTGACTTGTGGGCTTT
* *
1353 GAAAGGGTGCCACTAACTTGT-GGC--T
1 GAAAAGGTGCCACTGACTTGTGGGCTTT
* * * *
1378 G-AAAGAGTGCTA-TAGAGTTGTGAGCTTACAAAA
1 GAAAAG-GTGCCACT-GACTTGTGGGCTT-----T
* * *
1411 GAAAAAGAGTGCCACGGAGTTGTGGACTTT
1 G-AAAAG-GTGCCACTGACTTGTGGGCTTT
* * *
1441 GGAAAAGATGCCACCGACTTGTGGGCTTCG
1 -GAAAAGGTGCCACTGACTTGTGGGCTT-T
*
1471 GAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAA-GGTGCCACTGACTTGTGGGCTTT
1500 G--AAGGTTGCCACTGACTTGTGGGCTTT
1 GAAAAGG-TGCCACTGACTTGTGGGCTTT
**
1527 CGAAAAAAATGCCACTGACTTGTGGGCTTT
1 -G-AAAAGGTGCCACTGACTTGTGGGCTTT
** *
1557 GAAAAAAATGCCACTGACTTGTGGACTTT
1 G-AAAAGGTGCCACTGACTTGTGGGCTTT
1586 TGAAGGGTGA
Statistics
Matches: 357, Mismatches: 43, Indels: 63
0.77 0.09 0.14
Matches are distributed among these distances:
24 4 0.01
25 14 0.04
26 15 0.04
27 40 0.11
28 80 0.22
29 105 0.29
30 71 0.20
31 6 0.02
33 1 0.00
35 21 0.06
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
GAAAAGGTGCCACTGACTTGTGGGCTTT
Found at i:1324 original size:57 final size:57
Alignment explanation
Indices: 1128--1591 Score: 312
Period size: 57 Copynumber: 8.1 Consensus size: 57
1118 CTTAGATGGA
* * *
1128 AAAGG-TGCCACCGATTTGTGGGC-TTCGAAAAGGGTGCCACTGA-TTGTGGGC-TTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTT
*
1182 GAAGGTTGCCACTGACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTT
** * *
1238 GAAAAATATGCCACTGACTTGTGGGCTTTTGAACAGGTGCCACTAACTTGTGGGCTTTT
1 -AAAGGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTT
** *
1297 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATATGCCACTGACTTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTT
* * * * * **
1354 AAAGGGTGCCACTAACTTGT-GGC---TG-AAAGAGTGCTA-TAGAGTTGTGAGCTTACA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAG-GTGCCACT-GACTTGTGGGCTT-TT
* * * * * * * **
1408 AAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGA
1 AAAG-----G-TTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTT--TT
* * *
1473 AAAGGGTGCCACTGATTTGTGGGC-TTTG--AAGGTTGCCACTGACTTGTGGGCTTTCGA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGG-TGCCACTGACTTGTGGGCTTT--T
*** ** *
1530 AAAAAATGCCACTGACTTGTGGGC-TTTGAAAAAAATGCCACTGACTTGTGGACTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTG-AAAAGGTGCCACTGACTTGTGGGCTTTT
*
1587 GAAGG
1 AAAGG
1592 GTGATGAATG
Statistics
Matches: 324, Mismatches: 55, Indels: 59
0.74 0.13 0.13
Matches are distributed among these distances:
52 4 0.01
53 19 0.06
54 20 0.06
55 24 0.07
56 11 0.03
57 113 0.35
58 29 0.09
59 58 0.18
60 19 0.06
61 2 0.01
64 16 0.05
65 9 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (57 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTT
Found at i:1387 original size:25 final size:27
Alignment explanation
Indices: 1143--1387 Score: 148
Period size: 28 Copynumber: 8.7 Consensus size: 27
1133 TGCCACCGAT
* *
1143 TTGTGGGCTTCGAAAAGGGTGCCACTGA-
1 TTGTGGGCTT-G-AAAGAGTGCCACTAAC
*
1171 TTGTGGGCTTTG-AAG-GTTGCCACTGAC
1 TTGTGGGC-TTGAAAGAG-TGCCACTAAC
* *
1198 TTGTGGGCTTTTAAAG-GTTGCCACTGAC
1 TTGTGGGC-TTGAAAGAG-TGCCACTAAC
* * *
1226 TTGTGGGCTTTTGAAAAATATGCCACTGAC
1 TTGTGGGC--TTGAAAGA-GTGCCACTAAC
1256 TTGTGGGCTTTTGAACAG-GTGCCACTAAC
1 TTGTGGGC--TTGAA-AGAGTGCCACTAAC
* *
1285 TTGTGGGCTTTTAAAG-GTTGCCACTGAC
1 TTGTGGGC-TTGAAAGAG-TGCCACTAAC
* *
1313 TTGTGGGCTTTTGAAA-ATATGCCACTGAC
1 TTGTGGGC--TTGAAAGA-GTGCCACTAAC
*
1342 TTGTGGGCTTTGAAAGGGTGCCACTAAC
1 TTGTGGGC-TTGAAAGAGTGCCACTAAC
1370 TTGT-GGC-TGAAAGAGTGC
1 TTGTGGGCTTGAAAGAGTGC
1388 TATAGAGTTG
Statistics
Matches: 189, Mismatches: 15, Indels: 29
0.81 0.06 0.12
Matches are distributed among these distances:
25 11 0.06
26 12 0.06
27 17 0.09
28 74 0.39
29 49 0.26
30 25 0.13
31 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (27 bp):
TTGTGGGCTTGAAAGAGTGCCACTAAC
Found at i:1512 original size:27 final size:27
Alignment explanation
Indices: 1420--1591 Score: 119
Period size: 30 Copynumber: 6.0 Consensus size: 27
1410 AGAAAAAGAG
* * * *
1420 TGCCACGGAGTTGTGGACTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTT-G-AAGGA
* * *
1449 TGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTT-TG--AAGGA
* *
1479 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAGGA
**
1506 TGCCACTGACTTGTGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTT-G--AAGGA
**
1536 TGCCACTGACTTGTGGGCTTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTG--AAGGA
*
1565 TGCCACTGACTTGTGGACTTTTGAAGG
1 TGCCACTGACTTGTGGGC-TTTGAAGG
1592 GTGATGAATG
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
27 24 0.20
28 3 0.03
29 44 0.37
30 49 0.41
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (27 bp):
TGCCACTGACTTGTGGGCTTTGAAGGA
Found at i:3034 original size:1 final size:1
Alignment explanation
Indices: 3030--3149 Score: 168
Period size: 1 Copynumber: 120.0 Consensus size: 1
3020 CCGGACCCCC
* * * * *
3030 TTTTTTTTTTTGTTTGTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** *
3095 TTTTTTTTTTTTTTTTTTCATTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3150 GGAGGACGCC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 104 1.00
ACGTcount: A:0.01, C:0.01, G:0.05, T:0.93
Consensus pattern (1 bp):
T
Found at i:3086 original size:36 final size:36
Alignment explanation
Indices: 3030--3148 Score: 195
Period size: 35 Copynumber: 3.3 Consensus size: 36
3020 CCGGACCCCC
*
3030 TTTTTTTTTTTGTTTGTTTTTTTTTGTTTTGTTTTTT
1 TTTTTTTTTTTGTTT-TTTTTTTTTGTTTTTTTTTTT
3067 TTTTTTTTTTTGTTTTTTTTTTTT-TTTTTTTTTTT
1 TTTTTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTT
**
3102 TTTTTTTTTTTCATTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTT
3138 TTTTTTTTTTT
1 TTTTTTTTTTT
3149 TGGAGGACGC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 32 0.41
36 31 0.40
37 15 0.19
ACGTcount: A:0.01, C:0.01, G:0.05, T:0.93
Consensus pattern (36 bp):
TTTTTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTT
Found at i:3149 original size:48 final size:48
Alignment explanation
Indices: 3030--3149 Score: 190
Period size: 48 Copynumber: 2.5 Consensus size: 48
3020 CCGGACCCCC
*
3030 TTTTTTTTTTTGTTTGTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTG
1 TTTTTTTTTTT-TTTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTG
3079 TTTTTTTTTTTTTTTTTTTTTTTT-TTTT-TTTTTTCATTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTGTTTTTT--TTTTTTTTTTTG
3127 TTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
3150 GGAGGACGCC
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
46 6 0.09
47 4 0.06
48 47 0.69
49 11 0.16
ACGTcount: A:0.01, C:0.01, G:0.05, T:0.93
Consensus pattern (48 bp):
TTTTTTTTTTTTTTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTG
Found at i:27224 original size:1 final size:1
Alignment explanation
Indices: 27213--27354 Score: 104
Period size: 1 Copynumber: 142.0 Consensus size: 1
27203 GGCGTCCTCC
* ** ** ** ** * **
27213 AAAACAAAAAAAAAAACGAAAAAATGAAAAACCAAAAAAAAAATGAAAAAAAGAAAAACCAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * *
27278 AAAAAAAAAACAAAAAAAAAGCAAAAAAAAAAAAAAAAAAAAAAACAAAAAACAATAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
27343 AACAAAAAAAAA
1 AAAAAAAAAAAA
27355 GGGGGTCCGG
Statistics
Matches: 109, Mismatches: 32, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 109 1.00
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:27243 original size:27 final size:25
Alignment explanation
Indices: 27217--27351 Score: 128
Period size: 27 Copynumber: 5.0 Consensus size: 25
27207 TCCTCCAAAA
* *
27217 CAAAAAAAAAAACGAAAAAATGAAAAAC
1 CAAAAAAAAAAA--AAAAAA-AAAAAAA
* *
27245 CAAAAAAAAAATGAAAAAAAGAAAAAC
1 CAAAAAAAAAA--AAAAAAAAAAAAAA
27272 CAAAAAAAAAAAAAAACAAAAAAAAA
1 CAAAAAAAAAAAAAAA-AAAAAAAAA
27298 GC-AAAAAAAAAAAAAAAAAAAAAAA
1 -CAAAAAAAAAAAAAAAAAAAAAAAA
27323 CAAAAAACAATAAAAAAACAAACAAAAAA
1 CAAAAAA-AA-AAAAAAA-AAA-AAAAAA
27352 AAAGGGGGTC
Statistics
Matches: 96, Mismatches: 2, Indels: 17
0.83 0.02 0.15
Matches are distributed among these distances:
24 1 0.01
25 19 0.20
26 23 0.24
27 26 0.27
28 20 0.21
29 6 0.06
30 1 0.01
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (25 bp):
CAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:27277 original size:42 final size:42
Alignment explanation
Indices: 27218--27354 Score: 138
Period size: 42 Copynumber: 3.3 Consensus size: 42
27208 CCTCCAAAAC
* ** *
27218 AAAAAAAAAAA-CGAAAAAATGAAAAACCAAAAAAAAAATGA
1 AAAAAAAAAAACCAAAAAAAAAAAAAAACAAAAAAAAAATGA
27259 AAAAAAGAAAAACCAAAAAAAAAAAAAAAC-AAAAAAAAA-GCA
1 AAAAAA-AAAAACCAAAAAAAAAAAAAAACAAAAAAAAAATG-A
** * *
27301 AAAAAAAAAAAAAAAAAAAAAACAAAAAACAATAAAAAAA-CA
1 AAAAAAAAAAACCAAAAAAAAA-AAAAAACAAAAAAAAAATGA
27343 AACAAAAAAAAA
1 AA-AAAAAAAAA
27355 GGGGGTCCGG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
41 21 0.26
42 31 0.38
43 30 0.37
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (42 bp):
AAAAAAAAAAACCAAAAAAAAAAAAAAACAAAAAAAAAATGA
Found at i:27323 original size:35 final size:33
Alignment explanation
Indices: 27213--27354 Score: 124
Period size: 35 Copynumber: 4.1 Consensus size: 33
27203 GGCGTCCTCC
27213 AAAACAAAAAAAAAAACGAAAAAATGAAAAACCAAAAAA
1 AAAACAAAAAAAAAAA--AAAAAA--AAAAA--AAAAAA
** * **
27252 AAAA-TGAAAAAAAGAAAAACCAAAAAAAAAAA
1 AAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27284 AAAACAAAAAAAAAGCAAAAAAAAAAAAAAAAAAA
1 AAAACAAAAAAAAA--AAAAAAAAAAAAAAAAAAA
* * * *
27319 AAAACAAAAAACAATAAAAAAACAAACAAAAAA
1 AAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27352 AAA
1 AAA
27355 GGGGGTCCGG
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
32 10 0.12
33 26 0.30
34 5 0.06
35 29 0.34
36 4 0.05
38 8 0.09
39 4 0.05
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (33 bp):
AAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:27354 original size:27 final size:27
Alignment explanation
Indices: 27218--27354 Score: 123
Period size: 28 Copynumber: 4.8 Consensus size: 27
27208 CCTCCAAAAC
27218 AAAAAAAAAAACGAAAAAATGAAAAACCAAA
1 AAAAAAAAAAAC-AAAAAA--AAAAA-CAAA
* * *
27249 AAAAAAATGAAA-AAAAGAAAAACCAAAA
1 AAAAAAA-AAAACAAAAAAAAAAAC-AAA
*
27277 AAAAAAAAAAACAAAAAAAAAGCAAAAAA
1 AAAAAAAAAAACAAAAAAAAA--AACAAA
* *
27306 AAAAAAAAAAAAAAAAACAAAAAACAAT
1 AAAAAAAAAAACAAAAA-AAAAAACAAA
*
27334 AAAAAAACAAACAAAAAAAAA
1 AAAAAAAAAAACAAAAAAAAA
27355 GGGGGTCCGG
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
27 8 0.09
28 41 0.47
29 19 0.22
30 10 0.11
31 7 0.08
32 3 0.03
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (27 bp):
AAAAAAAAAAACAAAAAAAAAAACAAA
Found at i:28851 original size:30 final size:29
Alignment explanation
Indices: 28796--29264 Score: 353
Period size: 30 Copynumber: 15.9 Consensus size: 29
28786 TCACCCTTCA
* *
28796 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
28825 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
28855 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
28883 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
28913 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
28942 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
28972 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCT-TTTTC
* * *
29006 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
29033 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
29063 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
29092 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
29121 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * **
29151 AAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
29181 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
29208 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
29238 GAAGCCCACAAATCGGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCATCTTTT
29265 CCATCTTTAA
Statistics
Matches: 359, Mismatches: 58, Indels: 46
0.78 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 59 0.16
28 27 0.08
29 78 0.22
30 151 0.42
31 21 0.06
33 2 0.01
34 5 0.01
35 15 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:28898 original size:27 final size:27
Alignment explanation
Indices: 28856--28908 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
28846 TTTTTTTTCG
*
28856 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
28883 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
28909 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:28899 original size:58 final size:57
Alignment explanation
Indices: 28792--29233 Score: 277
Period size: 58 Copynumber: 7.5 Consensus size: 57
28782 TTCATCACCC
* *** *
28792 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--ACCTTCAAAGCCCACAAGTCAGTGGCA-TATTT
* * ***
28852 TTCGAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCATATTT
** * * * * * * *
28909 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTT-CAAAGCCCACAAGTCAGTGGCA-TATTT
** * * * *** * ***
28969 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTCAAAGCCCACAAGTCAGTGGCATATTT
** **
29030 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAGTCAGTGGCATATTT
* *
29089 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAGTCAGTGGCATATTT
* **
29148 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCA-A-CC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TT-CAAAGCCCACAAGTCAGTGGCATATTT
* *
29205 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
29234 TTTCGAAGCC
Statistics
Matches: 301, Mismatches: 63, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
55 2 0.01
56 23 0.08
57 42 0.14
58 72 0.24
59 53 0.18
60 70 0.23
61 6 0.02
62 15 0.05
63 4 0.01
64 14 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCATATTT
Found at i:29111 original size:88 final size:88
Alignment explanation
Indices: 28792--29263 Score: 392
Period size: 88 Copynumber: 5.4 Consensus size: 88
28782 TTCATCACCC
* *** * *** *
28792 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTCGA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCA-CCCTTTTCAA
**
28857 AAGCCCACAAGTCAGTGGCA-A-CC
64 AAGCCCACAAGTCAGTGGCATATTT
* * ** * * *
28880 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * * *
28943 AAGTCCACAACTCCGTGGCACTCTTT
64 AAGCCCACAAGTCAGTGGCA-TATTT
** * * * ** *
28969 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTT-TCAGCCCACAAGTTAGTGGCACCCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCACCCTTT
29031 TCAAAAGCCCACAAGTCAGTGGCATATTT
60 TCAAAAGCCCACAAGTCAGTGGCATATTT
* *
29060 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
29125 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
29148 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCAACC--TTC-AA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* **
29210 AGCCCACAAATCAGTGGCACCCTTT
65 AGCCCACAAGTCAGTGGCA-TATTT
* * *
29235 TTC-GAAGCCCACAAATCGGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT
29264 TCCATCTTTA
Statistics
Matches: 320, Mismatches: 46, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
85 6 0.02
86 62 0.19
87 49 0.15
88 109 0.34
89 26 0.08
91 24 0.08
92 24 0.08
93 4 0.01
94 15 0.05
95 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
GCCCACAAGTCAGTGGCATATTT
Found at i:29337 original size:43 final size:43
Alignment explanation
Indices: 29269--29358 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
29259 CCTTTTCCAT
*
29269 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
29312 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
29355 CTTT
1 CTTT
29359 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:29390 original size:52 final size:53
Alignment explanation
Indices: 29312--29449 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 53
29302 ACATTGGCAC
* *
29312 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* * *
29364 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC-CAT
* * * * *
29419 CTTTAAGCCCCATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
29450 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:30315 original size:13 final size:13
Alignment explanation
Indices: 30297--30321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30287 CATAAAGTGT
30297 TGTATCGATACAA
1 TGTATCGATACAA
30310 TGTATCGATACA
1 TGTATCGATACA
30322 TGTTTTTTTG
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:30402 original size:13 final size:13
Alignment explanation
Indices: 30384--30408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30374 ATCACTTAAA
30384 TGTATCGATACAT
1 TGTATCGATACAT
30397 TGTATCGATACA
1 TGTATCGATACA
30409 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30461 original size:52 final size:52
Alignment explanation
Indices: 30417--30597 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
30407 CACTGATCTT
30417 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
30469 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
30521 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
30573 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
30598 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:36012 original size:20 final size:20
Alignment explanation
Indices: 35987--36038 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
35977 ATAAACTAAA
35987 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
36007 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
36027 GTATCGATACAT
1 GTATCGATACAT
36039 TAAGGTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:36204 original size:20 final size:20
Alignment explanation
Indices: 36179--36232 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
36169 CTCCCACTAT
** *
36179 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGAAAAA
36199 TTGTATCGATACATGAAAAA
1 TTGTATCGATACATGAAAAA
*
36219 TTATATCGATACAT
1 TTGTATCGATACAT
36233 TGTCCCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAAAAA
Found at i:37636 original size:21 final size:20
Alignment explanation
Indices: 37606--37644 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
37596 CACATTTTTG
37606 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
37626 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
37645 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:37727 original size:19 final size:18
Alignment explanation
Indices: 37676--37765 Score: 66
Period size: 19 Copynumber: 5.1 Consensus size: 18
37666 TTGAATTTCA
37676 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
37693 AAACAGTAACTGTATCGATAC
1 ATA-AGT--TTGTATCGATAC
37714 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
*
37733 --AA---TGTATTGATAC
1 ATAAGTTTGTATCGATAC
37746 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
37765 A
1 A
37766 ATGTAACGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
13 10 0.18
15 2 0.04
17 4 0.07
18 1 0.02
19 23 0.41
20 3 0.05
21 13 0.23
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:37745 original size:32 final size:32
Alignment explanation
Indices: 37703--37770 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
37693 AAACAGTAAC
37703 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
37735 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
37767 TGTA
1 TGTA
37771 ACGCTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:42911 original size:53 final size:54
Alignment explanation
Indices: 42800--42911 Score: 156
Period size: 52 Copynumber: 2.1 Consensus size: 54
42790 GTTTTTTTTT
* * *
42800 TTTTTTTGGCCTTTTGGCTTGATGGGTAGTTTTAATTTCTTGGTTATTCTGTGG
1 TTTTTTTGGCCTTTTGGCTTGATAGATAGTTTTAATTTCTTGCTTATTCTGTGG
* *
42854 TTTTTTT-GCCTTTT-GCTTGATATATAGTTTTAATTTCTTGCTTATTTTGTGG
1 TTTTTTTGGCCTTTTGGCTTGATAGATAGTTTTAATTTCTTGCTTATTCTGTGG
*
42906 ATTTTT
1 TTTTTT
42912 CTTTTTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 38 0.73
53 7 0.13
54 7 0.13
ACGTcount: A:0.12, C:0.09, G:0.20, T:0.60
Consensus pattern (54 bp):
TTTTTTTGGCCTTTTGGCTTGATAGATAGTTTTAATTTCTTGCTTATTCTGTGG
Found at i:47624 original size:22 final size:22
Alignment explanation
Indices: 47599--47640 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47589 GAAATTTTAA
47599 ATTTT-ATATTAAAAATATTATT
1 ATTTTAATA-TAAAAATATTATT
*
47621 ATTTTAATATAAATATATTA
1 ATTTTAATATAAAAATATTA
47641 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAATATAAAAATATTATT
Found at i:48739 original size:16 final size:17
Alignment explanation
Indices: 48704--48739 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
48694 GAGGCGTGTC
*
48704 TGATTTAATATTTTTCG
1 TGATTTAAAATTTTTCG
48721 TGATTTAAAATTTTT-G
1 TGATTTAAAATTTTTCG
48737 TGA
1 TGA
48740 CGTGATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.56
Consensus pattern (17 bp):
TGATTTAAAATTTTTCG
Found at i:51939 original size:21 final size:20
Alignment explanation
Indices: 51892--51945 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
51882 CATTTGAGAC
* *
51892 ATGTATCGATACATTCACTT
1 ATGTATCGATACATGCACTA
51912 ATGTATCGATACATGCACTA
1 ATGTATCGATACATGCACTA
51932 ATTGTATCGATACA
1 A-TGTATCGATACA
51946 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATGCACTA
Found at i:53326 original size:89 final size:90
Alignment explanation
Indices: 53225--53414 Score: 233
Period size: 89 Copynumber: 2.1 Consensus size: 90
53215 ATCATATTAT
* * *
53225 AAGGATTTAGACTAATACATA-G-ATTATTTTTTAGAATCAGATTTCTTTTGGTAGAAAGAAAGA
1 AAGGA-TTAGACT-A-ACATATGAATTATTTTTTAGAATCAGATTTCGTTCGGTAGAAAAAAAGA
53288 AAA-AACTGATTATAAATGTCAGACTAC
63 AAATAACTGATTATAAATGTCAGACTAC
**
53315 AAGGATTAGACTAACATATGAATTATTTTTTAGAATCATTTTTCGTTCGGTAGAAAAAAAGAAAA
1 AAGGATTAGACTAACATATGAATTATTTTTTAGAATCAGATTTCGTTCGGTAGAAAAAAAGAAAA
* * * *
53380 GTTGATTGATTGTAAATGTCAGACTGC
66 --TAACTGATTATAAATGTCAGACTAC
53407 AAGGATTA
1 AAGGATTA
53415 AAATAATTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
87 5 0.06
88 2 0.02
89 46 0.53
90 5 0.06
92 28 0.33
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (90 bp):
AAGGATTAGACTAACATATGAATTATTTTTTAGAATCAGATTTCGTTCGGTAGAAAAAAAGAAAA
TAACTGATTATAAATGTCAGACTAC
Found at i:56216 original size:72 final size:71
Alignment explanation
Indices: 56118--56821 Score: 582
Period size: 72 Copynumber: 9.9 Consensus size: 71
56108 CTAATCTTAC
* * * *
56118 AAATAAGAATAAATTATACCTTAAAAAAATTT-AACTCCTATAATCAACCTAAAAAAGAAATTTA
1 AAATAAAAATAAATAATACCTT--AAAAATTTAAACTCATATAATCAAACTAAAAAA-AAATTTA
56182 AACTTCTAT
63 AACTTCTAT
56191 AAATAAAAATAAA-AATACCTTAAAAAATTTAAACTCATATAATCAAACTAGAAAACAAAA-TTA
1 AAATAAAAATAAATAATACCTT-AAAAATTTAAACTCATATAATCAAACTA-AAAA-AAAATTTA
* *
56254 AAGTTCTAC
63 AACTTCTAT
* * * * * *
56263 AAATAAAAATAAATCATATCTTAAAAAAATTTAAACTCGTATAATTATATTCAAAAAATAAATTT
1 AAATAAAAATAAATAATACCTT--AAAAATTTAAACTCATATAATCAAACT-AAAAAA-AAATTT
56328 AAACTTCTAT
62 AAACTTCTAT
*
56338 AAATAAAAATAAA-AATACCTTAAAAAAATTTAAACTCATATAATCAAA-TCAAAAAAAATTTAA
1 AAATAAAAATAAATAATACCTT--AAAAATTTAAACTCATATAATCAAACTAAAAAAAAATTTAA
*
56401 A-GTCTTAT
64 ACTTC-TAT
* * * * ** * *
56409 AAATAAAAATAAATCATATCTTTAAAATTTTAA-TTTTAATAATCATACCTAAAAAACAAACTTA
1 AAATAAAAATAAATAATACCTTAAAAATTTAAACTCAT-ATAATCA-AACTAAAAAA-AAATTTA
*
56473 AACTACTA-
63 AACTTCTAT
* * * *
56481 AAA-ATAGA-AAA-AATACCTTAAAAATTTACACTCATATAATTAAACT-AAAAAAAATTTAAAC
1 AAATAAAAATAAATAATACCTTAAAAATTTAAACTCATATAATCAAACTAAAAAAAAATTTAAAC
* *
56542 TTTTAC
66 TTCTAT
* * * * * * *
56548 AAATAAAAATAAATTATA-CTTTAAAATTTAATCTCGTACAATTATACCT--AAAAAAATTTAAA
1 AAATAAAAATAAATAATACCTTAAAAATTTAAACTCATATAATCA-AACTAAAAAAAAATTTAAA
*
56610 ATTCTAT
65 CTTCTAT
* * *
56617 AAATAAAAATAAATAATATCTTAAAATTTTAAACTCATATAATTAAAC--AAAAAAAA-TT-AAC
1 AAATAAAAATAAATAATACCTTAAAAATTTAAACTCATATAATCAAACTAAAAAAAAATTTAAAC
*
56678 TTATAT
66 TTCTAT
* * * ** *
56684 AAATAAAAATAAATAATAACTTAAATATTTAAATTTGTATAATCAAATTAAAAAATAAATTTAAA
1 AAATAAAAATAAATAATACCTTAAAAATTTAAACTCATATAATCAAACTAAAAAA-AAATTTAAA
* *
56749 CTTTTAC
65 CTTCTAT
* * * * ** **
56756 AAATAAAAATAAATTACACTTTAAAAATTTAAATTTGTATAATCATATTTAAAAAATAAATTTAA
1 AAATAAAAATAAATAATACCTTAAAAATTTAAACTCATATAATCA-AACTAAAAAA-AAATTTAA
56821 A
64 A
56822 TTTTTATTTT
Statistics
Matches: 519, Mismatches: 83, Indels: 58
0.79 0.13 0.09
Matches are distributed among these distances:
66 12 0.02
67 55 0.11
68 8 0.02
69 94 0.18
70 53 0.10
71 40 0.08
72 114 0.22
73 56 0.11
74 63 0.12
75 24 0.05
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (71 bp):
AAATAAAAATAAATAATACCTTAAAAATTTAAACTCATATAATCAAACTAAAAAAAAATTTAAAC
TTCTAT
Found at i:56540 original size:139 final size:141
Alignment explanation
Indices: 56115--56788 Score: 657
Period size: 139 Copynumber: 4.8 Consensus size: 141
56105 AAACTAATCT
* * * * * ** *
56115 TACAAATAAGAATAAATTATACCTTAAAAAAATTTAACTCCTATAATCA-ACCTAAAAAAGAAAT
1 TACAAATAAAAATAAATCATATCTT--TAAAATTTAAATTGTATAATCATACCTAAAAAATAAAT
56179 TTAAACTTCTATAAATAAAAATAAAAATACCTTAAAAAATTTAAACTCATATAATCAAACTAGAA
64 TTAAACTTCTATAAATAAAAATAAAAATACCTT-AAAAATTTAAACTCATATAATCAAACTA-AA
* * *
56244 AACAAAATTAAAGTTC
127 AA-AAATTTAAACTTA
* * * *
56260 TACAAATAAAAATAAATCATATCTTAAAAAAATTTAAACTCGTATAATTATA-TTCAAAAAATAA
1 TACAAATAAAAATAAATCATATCTT--TAAAATTTAAA-TTGTATAATCATACCT-AAAAAATAA
56324 ATTTAAACTTCTATAAATAAAAATAAAAATACCTTAAAAAAATTTAAACTCATATAATCAAA-TC
62 ATTTAAACTTCTATAAATAAAAATAAAAATACCTT--AAAAATTTAAACTCATATAATCAAACT-
56388 AAAAAAAATTTAAAGTCTTA
124 AAAAAAAATTTAAA--CTTA
* * * *
56408 T--AAATAAAAATAAATCATATCTTTAAAATTTTAATTTTAATAATCATACCTAAAAAACAAACT
1 TACAAATAAAAATAAATCATATCTTTAAAATTTAAATTGT-ATAATCATACCTAAAAAATAAATT
* * * * *
56471 TAAACTACTA-AAA-ATAGA-AAAAATACCTTAAAAATTTACACTCATATAATTAAACTAAAAAA
65 TAAACTTCTATAAATAAAAATAAAAATACCTTAAAAATTTAAACTCATATAATCAAACTAAAAAA
*
56533 AATTTAAACTTT
130 AATTTAAACTTA
* * *
56545 TACAAATAAAAATAAATTATA-CTTTAAAATTT-AATCTCGTACAATTATACCT--AAAA-AAAT
1 TACAAATAAAAATAAATCATATCTTTAAAATTTAAAT-T-GTATAATCATACCTAAAAAATAAAT
* * * *
56605 TTAAAATTCTATAAATAAAAATAAATAATATCTTAAAATTTTAAACTCATATAATTAAAC-AAAA
64 TTAAACTTCTATAAATAAAAATAAA-AATACCTTAAAAATTTAAACTCATATAATCAAACTAAAA
56669 AAAA-TT-AACTTA
128 AAAATTTAAACTTA
* * * **
56681 TATAAATAAAAATAAATAATAAC-TTAAATATTTAAATTTGTATAATCA-AATTAAAAAATAAAT
1 TACAAATAAAAATAAATCATATCTTTAAA-ATTTAAA-TTGTATAATCATACCTAAAAAATAAAT
* * *
56744 TTAAACTTTTACAAATAAAAAT-AAATTACACTTTAAAAATTTAAA
64 TTAAACTTCTATAAATAAAAATAAAAATAC-C-TTAAAAATTTAAA
56789 TTTGTATAAT
Statistics
Matches: 452, Mismatches: 50, Indels: 60
0.80 0.09 0.11
Matches are distributed among these distances:
135 12 0.03
136 38 0.08
137 27 0.06
138 43 0.10
139 122 0.27
140 1 0.00
141 11 0.02
142 3 0.01
143 5 0.01
144 36 0.08
145 35 0.08
146 40 0.09
147 49 0.11
148 30 0.07
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (141 bp):
TACAAATAAAAATAAATCATATCTTTAAAATTTAAATTGTATAATCATACCTAAAAAATAAATTT
AAACTTCTATAAATAAAAATAAAAATACCTTAAAAATTTAAACTCATATAATCAAACTAAAAAAA
ATTTAAACTTA
Found at i:56621 original size:208 final size:207
Alignment explanation
Indices: 56114--56787 Score: 641
Period size: 208 Copynumber: 3.2 Consensus size: 207
56104 CAAACTAATC
* *
56114 TTACAAATAAGAATAAATTATACCTTAAAAAAATTTAACTCCTATAATCAACCTAAAAAAGAAAT
1 TTACAAATAAAAATAAATTATACCTT-AAAAAATTTAACTCATATAATCAACCT--AAAA-AAAT
* * * * * *
56179 TTAAACTTCTATAAATAAAAATAAA-AATACCTTAAAAAATTTAAACTCATATAATCAAACTAGA
62 TTAAAATTCTATAAATAAAAATAAATAATATCTTTAAAATTTTAAACTCATATAATCAACCTAAA
* * *
56243 AAACAAAATTAAAGTTCTACAAATAAAAATAAATCATATCTTAAAAAAATTTAAACTCGTATAAT
127 AAACAAACTTAAA-TACTAAAAAT-AAAA-AAAT-A-A-CTT--AAAAATTTAAACTCGTATAAT
* *
56308 TATATTCAAAAAATAAATTTAAACTT
184 TA-A-ACTAAAAATAAATTTAAACTT
* * * * *
56334 CTATAAATAAAAATAAA-AATACCTTAAAAAAATTTAAACTCATATAATCAAATCAAAAAAAATT
1 TTACAAATAAAAATAAATTATACCTT-AAAAAATTT-AACTCATATAATC-AACCTAAAAAAATT
* * ** *
56398 T-AAAGTCTTATAAATAAAAATAAATCATATCTTTAAAATTTTAATTTTA-ATAATCATACCTAA
63 TAAAATTC-TATAAATAAAAATAAATAATATCTTTAAAATTTTAAACTCATATAATCA-ACCTAA
* * *
56461 AAAACAAACTTAAACTACTAAAAATAGAAAAAATACCTTAAAAATTTACACTCATATAATTAAAC
126 AAAACAAACTTAAA-TACTAAAAATA-AAAAAATAACTTAAAAATTTAAACTCGTATAATTAAAC
56526 TAAAAA-AAATTTAAACTT
189 TAAAAATAAATTTAAACTT
* * * *
56544 TTACAAATAAAAATAAATTATA-CTT-TAAAATTTAATCTCGTACAATTATACCTAAAAAAATTT
1 TTACAAATAAAAATAAATTATACCTTAAAAAATTTAA-CTCATATAATCA-ACCTAAAAAAATTT
* *
56607 AAAATTCTATAAATAAAAATAAATAATATC-TTAAAATTTTAAACTCATATAATTAAAC-AAAAA
64 AAAATTCTATAAATAAAAATAAATAATATCTTTAAAATTTTAAACTCATATAATCAACCTAAAAA
* * * * * * * * *
56670 AAATTAACTTATATAAATAAAAAT-AAATAATAACTTAAATATTTAAATTTGTATAATCAAATTA
129 ACA--AACTTAAAT-ACTAAAAATAAAAAAATAACTTAAAAATTTAAACTCGTATAATTAAACT-
56734 AAAAATAAATTTAAACTT
190 AAAAATAAATTTAAACTT
* *
56752 TTACAAATAAAAATAAATTACA-CTTTAAAAATTTAA
1 TTACAAATAAAAATAAATTATACCTTAAAAAATTTAA
56788 ATTTGTATAA
Statistics
Matches: 380, Mismatches: 57, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
206 37 0.10
207 25 0.07
208 106 0.28
209 14 0.04
210 30 0.08
211 9 0.02
212 1 0.00
213 21 0.06
215 3 0.01
217 5 0.01
218 34 0.09
219 66 0.17
220 26 0.07
221 3 0.01
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (207 bp):
TTACAAATAAAAATAAATTATACCTTAAAAAATTTAACTCATATAATCAACCTAAAAAAATTTAA
AATTCTATAAATAAAAATAAATAATATCTTTAAAATTTTAAACTCATATAATCAACCTAAAAAAC
AAACTTAAATACTAAAAATAAAAAAATAACTTAAAAATTTAAACTCGTATAATTAAACTAAAAAT
AAATTTAAACTT
Found at i:56686 original size:23 final size:25
Alignment explanation
Indices: 56660--56706 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
56650 CTCATATAAT
56660 TAAACAAAAA-AAAT-TAACTTATA
1 TAAACAAAAATAAATATAACTTATA
*
56683 TAAATAAAAATAAATAATAACTTA
1 TAAACAAAAATAAAT-ATAACTTA
56707 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
26 7 0.35
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (25 bp):
TAAACAAAAATAAATATAACTTATA
Found at i:56788 original size:26 final size:28
Alignment explanation
Indices: 56728--56788 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
56718 TTGTATAATC
* *
56728 AAATTAAAAAATAAATTTAAACTTTTAC
1 AAATTTAAAAATAAATTTAAACTTTTAA
*
56756 AAA--TAAAAATAAA-TTACAC-TTTAA
1 AAATTTAAAAATAAATTTAAACTTTTAA
56780 AAATTTAAA
1 AAATTTAAA
56789 TTTGTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 7 0.25
25 5 0.18
26 13 0.46
28 3 0.11
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATTTAAAAATAAATTTAAACTTTTAA
Found at i:58345 original size:15 final size:15
Alignment explanation
Indices: 58309--58343 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
58299 TTTTATTAAG
58309 TATTTTAGTGTTTTT
1 TATTTTAGTGTTTTT
*
58324 TAATTTAG-GTTTTT
1 TATTTTAGTGTTTTT
58338 TATTTT
1 TATTTT
58344 TAAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (15 bp):
TATTTTAGTGTTTTT
Found at i:58646 original size:22 final size:24
Alignment explanation
Indices: 58602--58646 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
58592 ATATCAATTT
*
58602 AAAATTCATATTTAATCTCATTAA
1 AAAATTCATATTTAATCTAATTAA
*
58626 AAAATT-ATATTTTAT-TAATTA
1 AAAATTCATATTTAATCTAATTA
58647 TTTTTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAATTCATATTTAATCTAATTAA
Found at i:58647 original size:14 final size:15
Alignment explanation
Indices: 58628--58660 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
58618 CTCATTAAAA
58628 AATTATATTTTAT-T
1 AATTATATTTTATGT
*
58642 AATTATTTTTTATGT
1 AATTATATTTTATGT
58657 AATT
1 AATT
58661 TTAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
AATTATATTTTATGT
Found at i:59128 original size:15 final size:15
Alignment explanation
Indices: 59108--59136 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59098 TAATATTTAA
59108 TAATTTAAATTATTT
1 TAATTTAAATTATTT
59123 TAATTTAAATTATT
1 TAATTTAAATTATT
59137 ATTTATCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATTTAAATTATTT
Found at i:59532 original size:14 final size:14
Alignment explanation
Indices: 59513--59558 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
59503 TATATTAATT
59513 TTAAAATAAATTTA
1 TTAAAATAAATTTA
**
59527 TTAAAATATTTTTA
1 TTAAAATAAATTTA
*
59541 TTTAAATAAATTTA
1 TTAAAATAAATTTA
59555 TTAA
1 TTAA
59559 CATTATTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAATAAATTTA
Found at i:59535 original size:28 final size:28
Alignment explanation
Indices: 59504--59558 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
59494 ATTCAATTAT
59504 ATATTAATT-TTAAAATAAATTTATTAAA
1 ATATT-ATTATTAAAATAAATTTATTAAA
* *
59532 ATATTTTTATTTAAATAAATTTATTAA
1 ATATTATTATTAAAATAAATTTATTAA
59559 CATTATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATATTATTATTAAAATAAATTTATTAAA
Found at i:59537 original size:24 final size:24
Alignment explanation
Indices: 59510--59573 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 24
59500 TTATATATTA
59510 ATTTTAAAATAAATTTATTAAAAT
1 ATTTTAAAATAAATTTATTAAAAT
*
59534 ATTTTTATTTAAATAAATTTATTAACAT
1 A-TTTTA---AAATAAATTTATTAAAAT
59562 -TATTTAAAATAA
1 AT-TTTAAAATAA
59574 TAAAATTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
24 7 0.21
25 5 0.15
26 1 0.03
27 4 0.12
28 17 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTTTAAAATAAATTTATTAAAAT
Found at i:60159 original size:25 final size:25
Alignment explanation
Indices: 60112--60161 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
60102 TATATTCGAA
* * *
60112 TTATATTTATAAATTATTTTTTATC
1 TTATATATATAAATAATTATTTATC
*
60137 TTATATATATATATAATTATTTATC
1 TTATATATATAAATAATTATTTATC
60162 ATATTCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATATATATAAATAATTATTTATC
Found at i:66954 original size:13 final size:14
Alignment explanation
Indices: 66930--66962 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
66920 CTCCCCAGGC
66930 TAAAAAATAAAAAA
1 TAAAAAATAAAAAA
*
66944 TAAAAAA-AAAAGA
1 TAAAAAATAAAAAA
66957 TAAAAA
1 TAAAAA
66963 GAAAGCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
TAAAAAATAAAAAA
Found at i:66964 original size:8 final size:7
Alignment explanation
Indices: 66930--66962 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
66920 CTCCCCAGGC
66930 TAAAAAA
1 TAAAAAA
66937 TAAAAAA
1 TAAAAAA
66944 TAAAAAA
1 TAAAAAA
*
66951 -AAAAGA
1 TAAAAAA
66957 TAAAAA
1 TAAAAA
66963 GAAAGCACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
TAAAAAA
Found at i:67091 original size:106 final size:107
Alignment explanation
Indices: 66896--67110 Score: 333
Period size: 106 Copynumber: 2.0 Consensus size: 107
66886 CCAAAACTTT
66896 AAATTCTTTCAACTTGAACAATCCCTCCCCAGGCTAAAAAATAAAAAATAAAAAAAAAAGATAAA
1 AAATTCTTTCAACTTGAACAATCCCTCCCCAGGC------ATAAAAAATAAAAAAAAAAGATAAA
* *
66961 AAGAAAGCACAGAGAACCAAAAAAAGCCCTAGTTATTTTTTTTTTTTC
60 AAGAAAGCACAGAGAACAAAAAAAAGCCCTAGTTACTTTTTTTTTTTC
* *
67009 AAATTCTTTCAACTTGAACAATCCCTCCCCCGGC-TAAAAAATAAAAAAATAAGATAAAAAGAAA
1 AAATTCTTTCAACTTGAACAATCCCTCCCCAGGCATAAAAAATAAAAAAAAAAGATAAAAAGAAA
67073 GCACAGAGAACAAAAAAAAGCCCTAGTTACTTTTTTTT
66 GCACAGAGAACAAAAAAAAGCCCTAGTTACTTTTTTTT
67111 CAAAATATTC
Statistics
Matches: 98, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
106 65 0.66
113 33 0.34
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.24
Consensus pattern (107 bp):
AAATTCTTTCAACTTGAACAATCCCTCCCCAGGCATAAAAAATAAAAAAAAAAGATAAAAAGAAA
GCACAGAGAACAAAAAAAAGCCCTAGTTACTTTTTTTTTTTC
Found at i:69833 original size:2 final size:2
Alignment explanation
Indices: 69828--69869 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
69818 ATCTTAAACT
69828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69870 CAGAGAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72990 original size:2 final size:2
Alignment explanation
Indices: 72983--73013 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
72973 ATCCTAAGGG
72983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73014 AATTACCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78398 original size:34 final size:31
Alignment explanation
Indices: 78360--78428 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 31
78350 GAATATATTT
78360 TATTTTAATTTAAATTTTTAATTAATAATAAAAA
1 TATTTTAATTTAAA-TTTT-ATTAATAA-AAAAA
* *
78394 TATTTTTATTTAAATTTTATTTATAAAAAAA
1 TATTTTAATTTAAATTTTATTAATAAAAAAA
78425 TATT
1 TATT
78429 AATACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 9 0.27
32 7 0.21
33 4 0.12
34 13 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTTTAATTTAAATTTTATTAATAAAAAAA
Found at i:79318 original size:32 final size:33
Alignment explanation
Indices: 79237--79329 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
79227 TATTTCTAAA
79237 TATTTATATAATATAAATATAATTTTAAATTATT
1 TATTT-TATAATATAAATATAATTTTAAATTATT
* *
79271 TATTTTATAACATAAATATATTTTTAAATTATT
1 TATTTTATAATATAAATATAATTTTAAATTATT
*
79304 TATTTT-TAATATAAATATAATCTTAA
1 TATTTTATAATATAAATATAATTTTAA
79330 TAATTTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 17 0.31
33 32 0.59
34 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (33 bp):
TATTTTATAATATAAATATAATTTTAAATTATT
Found at i:91101 original size:48 final size:48
Alignment explanation
Indices: 91046--91138 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
91036 GCGACACGTG
*
91046 GTACTCTCATCCATGAATCTTTTCAGCCTATTCTATCTAATATATGTA
1 GTACTCTCATCCATGAATCTTTTCAACCTATTCTATCTAATATATGTA
91094 GTACTCTCATCCATGAATCTTTTCAACCTATTCTATCTAATATAT
1 GTACTCTCATCCATGAATCTTTTCAACCTATTCTATCTAATATAT
91139 ACACACACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (48 bp):
GTACTCTCATCCATGAATCTTTTCAACCTATTCTATCTAATATATGTA
Found at i:91526 original size:14 final size:14
Alignment explanation
Indices: 91507--91535 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91497 CTAATATCAT
91507 GTTCAAAATTAATG
1 GTTCAAAATTAATG
91521 GTTCAAAATTAATG
1 GTTCAAAATTAATG
91535 G
1 G
91536 ATCTACGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (14 bp):
GTTCAAAATTAATG
Found at i:92759 original size:11 final size:11
Alignment explanation
Indices: 92743--92767 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92733 AAAGTATGAA
92743 AATAAAAATTT
1 AATAAAAATTT
92754 AATAAAAATTT
1 AATAAAAATTT
92765 AAT
1 AAT
92768 TTTTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAAAAATTT
Found at i:92954 original size:15 final size:17
Alignment explanation
Indices: 92918--92956 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
92908 ATAAGTCTTA
92918 TTAATAATAAAACAATT
1 TTAATAATAAAACAATT
92935 TTAATAATAAAA-AA-T
1 TTAATAATAAAACAATT
92950 TTAATAA
1 TTAATAA
92957 AGTACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.36
16 2 0.09
17 12 0.55
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAATAATAAAACAATT
Found at i:93027 original size:16 final size:17
Alignment explanation
Indices: 92995--93032 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
92985 TTTTTTTGTG
*
92995 TTTATATTTATATATAT
1 TTTATATTTATAGATAT
93012 TTTATA-TTATAGATAT
1 TTTATATTTATAGATAT
*
93028 ATTAT
1 TTTAT
93033 TCTAAAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTATATTTATAGATAT
Found at i:93438 original size:24 final size:24
Alignment explanation
Indices: 93411--93472 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
93401 AAAAATATTA
93411 AATTAAAAATTATATATAA-TAAAT
1 AATTAAAAATTATATA-AACTAAAT
*
93435 AATTAAAAATTAT-TAAACTATAT
1 AATTAAAAATTATATAAACTAAAT
93458 ATATT-AAAATTATAT
1 A-ATTAAAAATTATAT
93473 TTACTTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 2 0.06
23 15 0.44
24 17 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTAAAAATTATATAAACTAAAT
Found at i:93962 original size:23 final size:22
Alignment explanation
Indices: 93896--93982 Score: 102
Period size: 22 Copynumber: 3.9 Consensus size: 22
93886 CTTTTTTTAT
* *
93896 TTTAATTGGCTTTTAGTTTAGG
1 TTTAAATGGATTTTAGTTTAGG
* *
93918 TTTAAATGGAATTAAGTTTAGG
1 TTTAAATGGATTTTAGTTTAGG
*
93940 TTTAGATAGGATTTTAGTTTAGG
1 TTTAAAT-GGATTTTAGTTTAGG
* *
93963 TTTAAATGGGTTTAAGTTTA
1 TTTAAATGGATTTTAGTTTA
93983 AATTTATATT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 35 0.65
23 19 0.35
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (22 bp):
TTTAAATGGATTTTAGTTTAGG
Found at i:94477 original size:18 final size:18
Alignment explanation
Indices: 94454--94497 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
94444 TATTCATCCA
*
94454 AAAAATTTA-TATAATTTT
1 AAAAATTTATTA-AAATTT
*
94472 AAAAATTAATTAAAATTT
1 AAAAATTTATTAAAATTT
94490 AAAAATTT
1 AAAAATTT
94498 GTAATTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATTTATTAAAATTT
Found at i:97798 original size:23 final size:24
Alignment explanation
Indices: 97772--97817 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
97762 TTATAATATA
97772 TAATA-TAATAAAAAATATATTTT
1 TAATAGTAATAAAAAATATATTTT
* *
97795 TAATAGTTATTAAATAATATATT
1 TAATAG-TAATAAAAAATATATT
97818 AAGCAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
25 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATAGTAATAAAAAATATATTTT
Found at i:100352 original size:18 final size:18
Alignment explanation
Indices: 100329--100363 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
100319 TATTGAAATA
100329 AAAAATAACATAA-ATAAG
1 AAAAATAA-ATAATATAAG
100347 AAAAATAAATAATATAA
1 AAAAATAAATAATATAA
100364 AGATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAATAAATAATATAAG
Found at i:103740 original size:24 final size:24
Alignment explanation
Indices: 103711--103765 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
103701 TAAACTCTAT
103711 ATAATAAAATATATATTAAAAATAAAA
1 ATAA-AAAAT-TATA-TAAAAATAAAA
*
103738 ATAAAAAATTATATAAAATTAAAA
1 ATAAAAAATTATATAAAAATAAAA
103762 ATAA
1 ATAA
103766 TATTTTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 14 0.52
25 4 0.15
26 5 0.19
27 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
ATAAAAAATTATATAAAAATAAAA
Found at i:103753 original size:12 final size:13
Alignment explanation
Indices: 103708--103755 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
103698 TATTAAACTC
103708 TATATAATAAAATA
1 TATATAA-AAAATA
*
103722 TATATTAAAAATA
1 TATATAAAAAATA
* *
103735 AAAATAAAAAAT-
1 TATATAAAAAATA
103747 TATATAAAA
1 TATATAAAA
103756 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 7 0.25
13 15 0.54
14 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATATAAAAAATA
Found at i:103761 original size:17 final size:17
Alignment explanation
Indices: 103731--103768 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
103721 ATATATTAAA
103731 AATA-AAAATAAAAAAT
1 AATATAAAATAAAAAAT
* *
103747 TATATAAAATTAAAAAT
1 AATATAAAATAAAAAAT
103764 AATAT
1 AATAT
103769 TTTTACTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAAAATAAAAAAT
Found at i:103984 original size:18 final size:18
Alignment explanation
Indices: 103946--104003 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
103936 AAGCACATCT
*
103946 TTATATAAATAATTAAGAAA
1 TTATA-AAAAAATTAA-AAA
103966 TTATAAAAAAATTAAAAA
1 TTATAAAAAAATTAAAAA
103984 -TA-AAAGAAAATTAGAAAA
1 TTATAAA-AAAATTA-AAAA
104002 TT
1 TT
104004 TTTAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 3 0.09
17 9 0.26
18 7 0.21
19 10 0.29
20 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
TTATAAAAAAATTAAAAA
Found at i:104442 original size:3 final size:3
Alignment explanation
Indices: 104434--104477 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
104424 TCGGCACAAT
104434 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
104478 TTGTTGCCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:104593 original size:17 final size:17
Alignment explanation
Indices: 104563--104596 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
104553 AATATTATTA
104563 ATAATATAAATATAAAT
1 ATAATATAAATATAAAT
104580 ATAA-ATAAATTATAAAT
1 ATAATATAAA-TATAAAT
104597 TTTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATATAAATATAAAT
Found at i:106593 original size:9 final size:9
Alignment explanation
Indices: 106567--106608 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
106557 AAATTAATTT
106567 TTAAAAAAA
1 TTAAAAAAA
106576 TCT-AAAAAA
1 T-TAAAAAAA
106585 TTAAAAAAA
1 TTAAAAAAA
*
106594 ATAAAAAAA
1 TTAAAAAAA
106603 GTTAAA
1 -TTAAA
106609 GAACACGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.04
9 22 0.79
10 5 0.18
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:106593 original size:19 final size:19
Alignment explanation
Indices: 106569--106608 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
106559 ATTAATTTTT
*
106569 AAAAAAATCTAAAAAA-TTA
1 AAAAAAAT-AAAAAAAGTTA
106588 AAAAAAATAAAAAAAGTTA
1 AAAAAAATAAAAAAAGTTA
106607 AA
1 AA
106609 GAACACGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAAAATAAAAAAAGTTA
Found at i:106703 original size:22 final size:21
Alignment explanation
Indices: 106646--106703 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
106636 TTCTTTAATG
*
106646 TTTCATGCATGCA-ATTTTTC
1 TTTCATGCATGCACATTTTGC
**
106666 TTTCATGCATAAACATTTCATGC
1 TTTCATGCATGCACATTT--TGC
106689 -TTCATGCATGCACAT
1 TTTCATGCATGCACAT
106704 GATCATTACA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 11 0.37
21 4 0.13
22 13 0.43
23 2 0.07
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTCATGCATGCACATTTTGC
Found at i:107392 original size:30 final size:30
Alignment explanation
Indices: 107356--107640 Score: 176
Period size: 32 Copynumber: 9.5 Consensus size: 30
107346 TGAAAGCAGC
* *
107356 ATCCACGAACAAGCATAGCAACAGCCACCA
1 ATCCACGAACAAGCATAGCAGCAGCCTCCA
*
107386 ATCCACG----ATCA-A---GCAGCCTCCA
1 ATCCACGAACAAGCATAGCAGCAGCCTCCA
107408 ATCCACGAACAAGCATAGCAGCAGCCTCCA
1 ATCCACGAACAAGCATAGCAGCAGCCTCCA
* * ** *
107438 ATCCATGATCAAGCAGTTTCCAGCAGCTTCCA
1 ATCCACGAACAAGCA--TAGCAGCAGCCTCCA
* * *
107470 ATCCATGATCAAGCAGCT-TCGAGCAGCCTCCA
1 ATCCACGAACAAGCA--TAGC-AGCAGCCTCCA
* *
107502 ATCCATGAACAAGCACAGCAGCAGCCTCCA
1 ATCCACGAACAAGCATAGCAGCAGCCTCCA
* **
107532 ATCCACGATCAAGCAGCTTCCAGCAGCCTCCA
1 ATCCACGAACAAGCA--TAGCAGCAGCCTCCA
* * * **
107564 ATCCATGATCAAGCAGCT-TCGAGCCTCCTCCA
1 ATCCACGAACAAGCA--TAGC-AGCAGCCTCCA
* ** *
107596 ATCCACAAACAAGCGCAACAGCAGCCTCCA
1 ATCCACGAACAAGCATAGCAGCAGCCTCCA
*
107626 ATCCACGATCAAGCA
1 ATCCACGAACAAGCA
107641 GCTTCCAGCA
Statistics
Matches: 204, Mismatches: 35, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
22 15 0.07
25 1 0.00
26 6 0.03
27 1 0.00
30 75 0.37
31 4 0.02
32 102 0.50
ACGTcount: A:0.33, C:0.37, G:0.15, T:0.14
Consensus pattern (30 bp):
ATCCACGAACAAGCATAGCAGCAGCCTCCA
Found at i:107402 original size:22 final size:22
Alignment explanation
Indices: 107377--107422 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
107367 AGCATAGCAA
*
107377 CAGCCACCAATCCACGATCAAG
1 CAGCCACCAATCCACGAACAAG
*
107399 CAGCCTCCAATCCACGAACAAG
1 CAGCCACCAATCCACGAACAAG
107421 CA
1 CA
107423 TAGCAGCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.41, G:0.13, T:0.09
Consensus pattern (22 bp):
CAGCCACCAATCCACGAACAAG
Found at i:107470 original size:32 final size:32
Alignment explanation
Indices: 107397--107652 Score: 290
Period size: 32 Copynumber: 8.2 Consensus size: 32
107387 TCCACGATCA
* * **
107397 AGCAGCCTCCAATCCACGAACAAGCA--TAGC
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
*
107427 AGCAGCCTCCAATCCATGATCAAGCAGTTTCC
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
* *
107459 AGCAGCTTCCAATCCATGATCAAGCAGCTTCG
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
* **
107491 AGCAGCCTCCAATCCATGAACAAGCA-C-AGC
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
*
107521 AGCAGCCTCCAATCCACGATCAAGCAGCTTCC
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
*
107553 AGCAGCCTCCAATCCATGATCAAGCAGCTTCG
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
** ** * **
107585 AGCCTCCTCCAATCCACAAACAAGC-GC-AAC
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
*
107615 AGCAGCCTCCAATCCACGATCAAGCAGCTTCC
1 AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
107647 AGCAGC
1 AGCAGC
107653 TTGCAACTTG
Statistics
Matches: 188, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
30 69 0.37
31 6 0.03
32 113 0.60
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.15
Consensus pattern (32 bp):
AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
Found at i:107474 original size:62 final size:63
Alignment explanation
Indices: 107397--107652 Score: 288
Period size: 62 Copynumber: 4.1 Consensus size: 63
107387 TCCACGATCA
* *
107397 AGCAGCCTCCAATCCACGAACAAGCA-TAGCAGCAGCCTCCAATCCATGATCAAGCAGTTTCC
1 AGCAGCCTCCAATCCACGAACAAGCACTAACAGCAGCCTCCAATCCATGATCAAGCAGCTTCC
* * * * * **
107459 AGCAGCTTCCAATCCATGATCAAGCAGCT-TCGAGCAGCCTCCAATCCATGAACAAGCA-C-AGC
1 AGCAGCCTCCAATCCACGAACAAGCA-CTAAC-AGCAGCCTCCAATCCATGATCAAGCAGCTTCC
* ** *
107521 AGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGCAGCCTCCAATCCATGATCAAGCAGCTTCG
1 AGCAGCCTCCAATCCACGAACAAGCA-CTAACAGCAGCCTCCAATCCATGATCAAGCAGCTTCC
** * * *
107585 AGCCTCCTCCAATCCACAAACAAGCGC-AACAGCAGCCTCCAATCCACGATCAAGCAGCTTCC
1 AGCAGCCTCCAATCCACGAACAAGCACTAACAGCAGCCTCCAATCCATGATCAAGCAGCTTCC
107647 AGCAGC
1 AGCAGC
107653 TTGCAACTTG
Statistics
Matches: 162, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
62 111 0.69
63 4 0.02
64 47 0.29
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.15
Consensus pattern (63 bp):
AGCAGCCTCCAATCCACGAACAAGCACTAACAGCAGCCTCCAATCCATGATCAAGCAGCTTCC
Found at i:107558 original size:94 final size:94
Alignment explanation
Indices: 107397--107654 Score: 426
Period size: 94 Copynumber: 2.7 Consensus size: 94
107387 TCCACGATCA
* * *
107397 AGCAGCCTCCAATCCACGAACAAGCATAGCAGCAGCCTCCAATCCATGATCAAGCAGTTTCCAGC
1 AGCAGCCTCCAATCCACGAACAAGCACAGCAGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGC
107462 AGCTTCCAATCCATGATCAAGCAGCTTCG
66 AGCTTCCAATCCATGATCAAGCAGCTTCG
*
107491 AGCAGCCTCCAATCCATGAACAAGCACAGCAGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGC
1 AGCAGCCTCCAATCCACGAACAAGCACAGCAGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGC
*
107556 AGCCTCCAATCCATGATCAAGCAGCTTCG
66 AGCTTCCAATCCATGATCAAGCAGCTTCG
** * * *
107585 AGCCTCCTCCAATCCACAAACAAGCGCAACAGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGC
1 AGCAGCCTCCAATCCACGAACAAGCACAGCAGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGC
107650 AGCTT
66 AGCTT
107655 GCAACTTGAG
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 152 1.00
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.16
Consensus pattern (94 bp):
AGCAGCCTCCAATCCACGAACAAGCACAGCAGCAGCCTCCAATCCACGATCAAGCAGCTTCCAGC
AGCTTCCAATCCATGATCAAGCAGCTTCG
Found at i:108035 original size:75 final size:75
Alignment explanation
Indices: 107952--108113 Score: 243
Period size: 75 Copynumber: 2.1 Consensus size: 75
107942 TTTGAGTACA
* * * * *
107952 CCAACAGCAGCTCTCAGCCCGCAGACAGCTTCCAGCAGCATCCATTCCAGCAAGCAGCAGTTTCC
1 CCAACAGCAGCTCCCAGCCCACAGACAGCTTCCAGCAGCATCCACTCCAGCAAGCAGCAGCTCCC
*
108017 AGCATCCACT
66 AACATCCACT
* *
108027 CCAACAGCAGCTCCCAGCCCACGGATAGCTTCCAGCAGCATCCACTCCAGCAAGCAGCAGCTCCC
1 CCAACAGCAGCTCCCAGCCCACAGACAGCTTCCAGCAGCATCCACTCCAGCAAGCAGCAGCTCCC
108092 AACATCCACT
66 AACATCCACT
108102 CCAACAAGCAGC
1 CCAAC-AGCAGC
108114 AGCTGGTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 72 0.92
76 6 0.08
ACGTcount: A:0.28, C:0.42, G:0.17, T:0.13
Consensus pattern (75 bp):
CCAACAGCAGCTCCCAGCCCACAGACAGCTTCCAGCAGCATCCACTCCAGCAAGCAGCAGCTCCC
AACATCCACT
Found at i:108600 original size:7 final size:7
Alignment explanation
Indices: 108588--108628 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
108578 TGGAAGGCAA
108588 AAAAAAT
1 AAAAAAT
108595 AAAAAAT
1 AAAAAAT
108602 AAAAAAT
1 AAAAAAT
108609 AAAAAAT
1 AAAAAAT
108616 AAAAAAT
1 AAAAAAT
108623 AAAAAA
1 AAAAAA
108629 AAATCACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:108735 original size:19 final size:19
Alignment explanation
Indices: 108711--108772 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
108701 TTTTGAATTT
108711 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
108730 CAAACAGAAAATGTATCGATA
1 CAAACAG--TTTGTATCGATA
*
108751 CATA-AGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
108770 CAA
1 CAA
108773 TGTATCGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:108778 original size:13 final size:13
Alignment explanation
Indices: 108760--108784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108750 ACATAAGTGT
108760 TGTATCGATACAA
1 TGTATCGATACAA
108773 TGTATCGATACA
1 TGTATCGATACA
108785 TAAGTGTTGT
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:108780 original size:32 final size:32
Alignment explanation
Indices: 108739--108811 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
108729 ACAAACAGAA
108739 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
108771 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
108803 AATGTATCG
1 AATGTATCG
108812 CTACGAAGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:108797 original size:19 final size:19
Alignment explanation
Indices: 108741--108803 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
108731 AAACAGAAAA
108741 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
108760 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
108773 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
108792 TGTATCGATACA
1 TGTATCGATACA
108804 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:108874 original size:13 final size:13
Alignment explanation
Indices: 108856--108915 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
108846 ATTAATGAAA
108856 TGTATCGATACAT
1 TGTATCGATACAT
108869 TGTATCGATACAT
1 TGTATCGATACAT
*
108882 T-AAT-GA-A-A-
1 TGTATCGATACAT
108890 TGTATCGATACAT
1 TGTATCGATACAT
108903 TGTATCGATACAT
1 TGTATCGATACAT
108916 CGATCTAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 1 0.03
9 3 0.08
10 3 0.08
11 3 0.08
12 3 0.08
13 27 0.68
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:108878 original size:34 final size:34
Alignment explanation
Indices: 108835--108915 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
108825 GCCAAGGAAA
108835 TGTATCGATACATTAATGAAATGTATCGATACAT
1 TGTATCGATACATTAATGAAATGTATCGATACAT
108869 TGTATCGATACATTAATGAAATGTATCGATACAT
1 TGTATCGATACATTAATGAAATGTATCGATACAT
108903 TGTATCGATACAT
1 TGTATCGATACAT
108916 CGATCTAGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (34 bp):
TGTATCGATACATTAATGAAATGTATCGATACAT
Found at i:111441 original size:80 final size:80
Alignment explanation
Indices: 111271--111565 Score: 404
Period size: 79 Copynumber: 3.8 Consensus size: 80
111261 TTCATCTCGA
** *
111271 GGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTC---ATCGGGGATACT-CCAACC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAACC
*
111332 TCGTTATTTCTAAGG
66 TCGTTATTTCTGAGG
111347 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAACC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAACC
*
111412 CCGTTATTTCTGAGG
66 TCGTTATTTCTGAGG
* * * * * *
111427 GGATACTCTAACCCCGGTATTATTTATAAAACATTAATTTTTCATAATCGGGAATACTCCC-ATC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAACC
111491 TCGTTATTT-TCGAGG
66 TCGTTATTTCT-GAGG
* * * *
111506 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCATAATCGGGGATACTCC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
111566 AACTCCGATT
Statistics
Matches: 193, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
76 40 0.21
78 1 0.01
79 77 0.40
80 75 0.39
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (80 bp):
GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAACC
TCGTTATTTCTGAGG
Found at i:111557 original size:159 final size:156
Alignment explanation
Indices: 111271--111565 Score: 414
Period size: 159 Copynumber: 1.9 Consensus size: 156
111261 TTCATCTCGA
* *
111271 GGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTCATCGGGGATACTCCAACCTCGT
1 GGATACTCCAACCCCGGTTCCATTTACAAAACATCAATTTTTCATCGGGAATACTCCAACCTCGT
* * * *
111336 TATTTCTAAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGA
66 TATTTCTAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCATAATCGGGGA
111401 TACTCCCAACCCCGTTATTTCTGAGG
131 TACTCCCAACCCCGTTATTTCTGAGG
* * * * * *
111427 GGATACTCTAACCCCGGTAT-TATTTATAAAACATTAATTTTTCATAATCGGGAATACTCCCATC
1 GGATACTCCAACCCCGGT-TCCATTTACAAAACATCAATTTTTC---ATCGGGAATACTCCAACC
*
111491 TCGTTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCATAATC
62 TCGTTATTTCT-AAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCATAATC
111555 GGGGATACTCC
126 GGGGATACTCC
111566 AACTCCGATT
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
156 36 0.30
157 1 0.01
158 1 0.01
159 83 0.69
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (156 bp):
GGATACTCCAACCCCGGTTCCATTTACAAAACATCAATTTTTCATCGGGAATACTCCAACCTCGT
TATTTCTAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCATAATCGGGGA
TACTCCCAACCCCGTTATTTCTGAGG
Found at i:111580 original size:51 final size:51
Alignment explanation
Indices: 111504--111623 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 51
111494 TTATTTTCGA
*
111504 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCAATTCT-CCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATT-TACCACAATC
* * *
111555 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCGATTTATCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTACCACAATC
*
111606 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
111624 TTATTTCATC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 1 0.02
51 56 0.92
52 4 0.07
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTACCACAATC
Found at i:111640 original size:28 final size:28
Alignment explanation
Indices: 111608--111678 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
111598 TCACAATCGA
111608 GGATACTCCAACCCCGTTATTTCATC-A-G
1 GGATACTCCAACCCCGTTATTTC--CGAGG
* *
111636 GGATATTCCAACCCTGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTATTTCCGAGG
111664 GGATACTCCAACCCC
1 GGATACTCCAACCCC
111679 AGCTTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 35 0.95
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCCGAGG
Found at i:111739 original size:52 final size:51
Alignment explanation
Indices: 111662--111782 Score: 170
Period size: 52 Copynumber: 2.4 Consensus size: 51
111652 TTATTTCCGA
* *
111662 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTTACAATC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
* * * * *
111713 GGGGAATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATT
1 GGGG-ATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
111765 GGGGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
111783 TTATTTTCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
51 16 0.27
52 44 0.73
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:116762 original size:15 final size:15
Alignment explanation
Indices: 116738--116767 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116728 CCCGAACCCG
116738 AACTTCAAAATAAGT
1 AACTTCAAAATAAGT
*
116753 AACTTTAAAATAAGT
1 AACTTCAAAATAAGT
116768 TTAAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (15 bp):
AACTTCAAAATAAGT
Found at i:118220 original size:158 final size:157
Alignment explanation
Indices: 117932--118247 Score: 524
Period size: 158 Copynumber: 2.0 Consensus size: 157
117922 ACTTATATCC
** *
117932 GAAACTCATTTAATTCTTAGATGATGATCGTTATTTACATGCCAATTGTACACAATTCTTTGTTG
1 GAAACTCATTTAATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
117997 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTTTTTTTTGACATATACGTATATA
66 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTTTTTTTTGACATATAC-TATATA
*
118062 TTCATTCAACTAAATTTATACGTTCATA
130 TTCATTCAAATAAATTTATACGTTCATA
*
118090 GAAACTCATTTGATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
1 GAAACTCATTTAATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
**
118155 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTATTTATTTTGGTATATACATATA
66 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTT-TTT-TTTTGACATATAC-TATA
*
118220 TATTCATTCAAATAAATTTATATGTTCA
128 TATTCATTCAAATAAATTTATACGTTCA
118248 ATATAGTTGT
Statistics
Matches: 147, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
158 103 0.70
159 3 0.02
160 41 0.28
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (157 bp):
GAAACTCATTTAATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTTTTTTTTGACATATACTATATAT
TCATTCAAATAAATTTATACGTTCATA
Found at i:119335 original size:16 final size:16
Alignment explanation
Indices: 119310--119379 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
119300 ATACCCTTAT
119310 AATATTTATATT-TTA
1 AATATTTATATTATTA
119325 AATATTTTATATTATT-
1 AATA-TTTATATTATTA
119341 AAT-TTTGATA-TATT-
1 AATATTT-ATATTATTA
*
119355 AATAATTAATATTATATA
1 AAT-ATTTATATTAT-TA
119373 AAT-TTTA
1 AATATTTA
119380 AAATATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 10 0.22
15 10 0.22
16 19 0.42
17 3 0.07
18 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
AATATTTATATTATTA
Found at i:126134 original size:20 final size:21
Alignment explanation
Indices: 126111--126162 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
126101 TATCATAGCT
*
126111 TTTTTAGGCTTGT-TATAACC
1 TTTTTAAGCTTGTCTATAACC
* *
126131 TTTTAAAGCTT-TCTATTACC
1 TTTTTAAGCTTGTCTATAACC
126151 TTTTTAAGCTTG
1 TTTTTAAGCTTG
126163 CCATTATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (21 bp):
TTTTTAAGCTTGTCTATAACC
Found at i:126155 original size:40 final size:39
Alignment explanation
Indices: 126051--126162 Score: 93
Period size: 40 Copynumber: 2.8 Consensus size: 39
126041 GCACTTTATT
* * * * *
126051 TTTTAAAGTTTTCTATTACCTTTTTAGATTCTTTATTATC
1 TTTTAAAGCTTTCTATTACCTTTTTAGCTT-GTTATAACC
* * *
126091 TTTTCAGGCTTATC-A-TAGCTTTTTTAGGCTTGTTATAACC
1 TTTTAAAGCTT-TCTATTA-CCTTTTTA-GCTTGTTATAACC
126131 TTTTAAAGCTTTCTATTACCTTTTTAAGCTTG
1 TTTTAAAGCTTTCTATTACCTTTTT-AGCTTG
126163 CCATTATCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
39 4 0.07
40 43 0.78
41 8 0.15
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (39 bp):
TTTTAAAGCTTTCTATTACCTTTTTAGCTTGTTATAACC
Found at i:126183 original size:20 final size:20
Alignment explanation
Indices: 126128--126176 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
126118 GCTTGTTATA
* * *
126128 ACCTTTTAAAGCTTTCTATT
1 ACCTTTTTAAGCTTGCCATT
126148 ACCTTTTTAAGCTTGCCATT
1 ACCTTTTTAAGCTTGCCATT
*
126168 ATCTTTTTA
1 ACCTTTTTA
126177 GACTTGCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.51
Consensus pattern (20 bp):
ACCTTTTTAAGCTTGCCATT
Found at i:126228 original size:17 final size:19
Alignment explanation
Indices: 126183--126233 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
126173 TTTAGACTTG
*
126183 CTAAATACCTTTTCAAGCT
1 CTAAATGCCTTTTCAAGCT
126202 CGTTAAATG-CTTTTCAAGCT
1 C--TAAATGCCTTTTCAAGCT
126222 C-AAATGCCTTTT
1 CTAAATGCCTTTT
126234 AAGGCAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.18
18 5 0.18
19 1 0.04
20 12 0.43
21 5 0.18
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (19 bp):
CTAAATGCCTTTTCAAGCT
Found at i:126345 original size:12 final size:12
Alignment explanation
Indices: 126328--126352 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
126318 AAAAAAGCAT
126328 CAACAATTGGCG
1 CAACAATTGGCG
126340 CAACAATTGGCG
1 CAACAATTGGCG
126352 C
1 C
126353 CATCAATGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (12 bp):
CAACAATTGGCG
Found at i:126530 original size:20 final size:21
Alignment explanation
Indices: 126482--126532 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
126472 TTTTAAGCAT
126482 TTAGCCTTTTTAGGCTCTCTA
1 TTAGCCTTTTTAGGCTCTCTA
*
126503 TTA-TCTTTTTAGGCTCATC-A
1 TTAGCCTTTTTAGGCTC-TCTA
126523 -TAGCCTTTTT
1 TTAGCCTTTTT
126533 CAAGCTATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.51
Consensus pattern (21 bp):
TTAGCCTTTTTAGGCTCTCTA
Found at i:127379 original size:19 final size:20
Alignment explanation
Indices: 127329--127380 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
127319 CAAATTATTT
*
127329 ATTTTAATTTTAATATATAA
1 ATTTTAATTATAATATATAA
*
127349 AATTTAACTTATAA-AT-TAA
1 ATTTTAA-TTATAATATATAA
127368 CATTTTAATTATA
1 -ATTTTAATTATA
127381 TTGATTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 8 0.30
20 14 0.52
21 5 0.19
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTAATTATAATATATAA
Found at i:129718 original size:22 final size:22
Alignment explanation
Indices: 129691--129734 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
129681 AATCAGTTAT
*
129691 TATATATGTAAATGTCTTAAAA
1 TATATATATAAATGTCTTAAAA
* *
129713 TATATATATATATGTTTTAAAA
1 TATATATATAAATGTCTTAAAA
129735 AGGAATAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
TATATATATAAATGTCTTAAAA
Found at i:130788 original size:2 final size:2
Alignment explanation
Indices: 130740--130772 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
130730 TATAAATTTC
130740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130773 AAAGATGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131236 original size:37 final size:38
Alignment explanation
Indices: 131183--131257 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
131173 GCTCTGGCAA
* *
131183 TTTTATATTATTTTTTTTAATAAAATTTTTTTATAAATT
1 TTTTATATTATTTTTTTAAATAAAA-TTATTTATAAATT
131222 TTTTATATTA-TTTTTTAAATAAAATTATTTATAAAT
1 TTTTATATTATTTTTTTAAATAAAATTATTTATAAAT
131258 AAAATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 11 0.32
38 13 0.38
39 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTATATTATTTTTTTAAATAAAATTATTTATAAATT
Found at i:131250 original size:17 final size:16
Alignment explanation
Indices: 131228--131273 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
131218 AATTTTTTAT
131228 ATTATTTTTTAAATAAA
1 ATTA-TTTTTAAATAAA
*
131245 ATTATTTATAAATAAA
1 ATTATTTTTAAATAAA
131261 ATTATTTTTAAAT
1 ATTATTTTTAAAT
131274 TTATGATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTTTAAATAAA
Done.