Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 10 of 21
Found at i:956162 original size:12 final size:12
Alignment explanation
Indices: 956132--956165 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
956122 TAATTATATA
956132 TTTTATATTA-T
1 TTTTATATTATT
*
956143 TTTAATATTATT
1 TTTTATATTATT
956155 TTTTATATTAT
1 TTTTATATTAT
956166 AATTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:956174 original size:23 final size:21
Alignment explanation
Indices: 956120--956174 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
956110 TATTAGATAA
956120 TATAATTATA-TATTTTATAT
1 TATAATTATATTATTTTATAT
*
956140 TAT-TTTAATATTATTTTTTATAT
1 TATAATT-ATATTA--TTTTATAT
956163 TATAATTATATT
1 TATAATTATATT
956175 TAAAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 2 0.07
20 6 0.21
21 2 0.07
23 16 0.57
24 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATAATTATATTATTTTATAT
Found at i:956888 original size:14 final size:15
Alignment explanation
Indices: 956852--956889 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
956842 TAAAGAGTTT
*
956852 ATATTTTATGTATTA
1 ATATTTTATATATTA
*
956867 ATAGTTTATATA-TA
1 ATATTTTATATATTA
956881 ATATTTTAT
1 ATATTTTAT
956890 TTTTTAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (15 bp):
ATATTTTATATATTA
Found at i:957338 original size:39 final size:36
Alignment explanation
Indices: 957294--957378 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
957284 TAAAATAATA
* * *
957294 TTAAAAAAATAATTTTATGTTAATATTTATAATTAAATT
1 TTAAAAAAATAATTTT-T-TTAATATATA-AATAAAAAT
*
957333 TTAAAAAAATAATTTTTTTATTATATAAATAAAAAT
1 TTAAAAAAATAATTTTTTTAATATATAAATAAAAAT
957369 TTAAAAAAAT
1 TTAAAAAAAT
957379 CAACTCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 17 0.40
37 8 0.19
38 1 0.02
39 16 0.38
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (36 bp):
TTAAAAAAATAATTTTTTTAATATATAAATAAAAAT
Found at i:962148 original size:2 final size:2
Alignment explanation
Indices: 962141--962169 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
962131 TAGAATTGAA
962141 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 A
962170 ACCCTCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:964608 original size:30 final size:28
Alignment explanation
Indices: 964564--964650 Score: 93
Period size: 30 Copynumber: 3.0 Consensus size: 28
964554 TATTTGTATA
964564 AAAATTAAAAGTTAAAAGTTTATTTAAATGT
1 AAAA-TAAAAGTTAAAAGTTTATTTAAA--T
* * *
964595 AAAATAAAGGTTAAAGGTTTATTCAAAT
1 AAAATAAAAGTTAAAAGTTTATTTAAAT
* *
964623 ATAATAAAAGTATAAAAGCTTATTTAAA
1 AAAATAAAAGT-TAAAAGTTTATTTAAA
964651 CAAGGTTGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 10 0.21
29 13 0.28
30 20 0.43
31 4 0.09
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.34
Consensus pattern (28 bp):
AAAATAAAAGTTAAAAGTTTATTTAAAT
Found at i:965165 original size:21 final size:21
Alignment explanation
Indices: 965129--965189 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
965119 TAAATTATTT
*
965129 TTTAATAATAAAAATATTTAAA
1 TTTAATTAT-AAAATATTTAAA
*
965151 TTTAATTATAAAATATATAAA
1 TTTAATTATAAAATATTTAAA
965172 TATTAA-TATAAAATATTT
1 T-TTAATTATAAAATATTT
965190 TTTATTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 23 0.66
22 12 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAATTATAAAATATTTAAA
Found at i:966743 original size:11 final size:11
Alignment explanation
Indices: 966723--966782 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
966713 GTTTATTAAA
*
966723 TATATCATATT
1 TATATTATATT
966734 TATATTATATTTT
1 TATATTATA--TT
* *
966747 TGTATTATACT
1 TATATTATATT
966758 TATATTATATTTT
1 TATATTATA--TT
966771 TATATTATATT
1 TATATTATATT
966782 T
1 T
966783 TATAATTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 20 0.50
13 20 0.50
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (11 bp):
TATATTATATT
Found at i:966752 original size:13 final size:13
Alignment explanation
Indices: 966732--966783 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
966722 ATATATCATA
966732 TTTATATTATATT
1 TTTATATTATATT
*
966745 TTTGTATTATA--
1 TTTATATTATATT
*
966756 CTTATATTATATT
1 TTTATATTATATT
966769 TTTATATTATATT
1 TTTATATTATATT
966782 TT
1 TT
966784 ATAATTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 9 0.27
13 24 0.73
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTATATTATATT
Found at i:966790 original size:13 final size:12
Alignment explanation
Indices: 966723--966791 Score: 70
Period size: 13 Copynumber: 5.7 Consensus size: 12
966713 GTTTATTAAA
*
966723 TATATCATA-TT
1 TATATTATATTT
966734 TATATTATATTTT
1 TATATTATA-TTT
* *
966747 TGTATTATA-CT
1 TATATTATATTT
966758 TATATTATATTTT
1 TATATTATA-TTT
966771 TATATTATATTT
1 TATATTATATTT
966783 TATAATTAT
1 TAT-ATTAT
966792 TAGATCTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
11 17 0.35
12 6 0.12
13 25 0.52
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (12 bp):
TATATTATATTT
Found at i:966792 original size:24 final size:24
Alignment explanation
Indices: 966723--966791 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
966713 GTTTATTAAA
*
966723 TATATCATATTTATATTATATTTT
1 TATATTATATTTATATTATATTTT
* *
966747 TGTATTATACTTATATTATATTTT
1 TATATTATATTTATATTATATTTT
966771 TATATTATATTTTATAATTAT
1 TATATTATA-TTTAT-ATTAT
966792 TAGATCTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 29 0.76
25 4 0.11
26 5 0.13
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (24 bp):
TATATTATATTTATATTATATTTT
Found at i:967984 original size:19 final size:17
Alignment explanation
Indices: 967953--968017 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 17
967943 TTTATTAGTT
967953 ATATAAATATAAATATA
1 ATATAAATATAAATATA
967970 ATATAAATTATTAAATAT-
1 ATATAAA-TA-TAAATATA
*
967988 ATCA-AAATTTAAATATAA
1 AT-ATAAATATAAATAT-A
968006 ATACTAAATATA
1 ATA-TAAATATA
968018 TATTAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 7 0.18
17 9 0.23
18 9 0.23
19 14 0.36
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAAATATAAATATA
Found at i:967995 original size:29 final size:29
Alignment explanation
Indices: 967963--968018 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
967953 ATATAAATAT
*
967963 AAATAT-AATATAAATTATTAAATATATCA
1 AAATATAAATATAAA-TACTAAATATATCA
*
967992 AAATTTAAATATAAATACTAAATATAT
1 AAATATAAATATAAATACTAAATATAT
968019 ATTAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATATAAATATAAATACTAAATATATCA
Found at i:968015 original size:7 final size:6
Alignment explanation
Indices: 967953--968017 Score: 57
Period size: 6 Copynumber: 10.8 Consensus size: 6
967943 TTTATTAGTT
*
967953 ATATAA ATATAA ATAT-A ATATAA ATTATTAA ATAT-- ATCA-AA ATTTAA
1 ATATAA ATATAA ATATAA ATATAA A-TA-TAA ATATAA AT-ATAA ATATAA
968000 ATATAA ATACTAA ATATA
1 ATATAA ATA-TAA ATATA
968018 TATTAAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 27 0.55
7 10 0.20
8 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:969020 original size:21 final size:21
Alignment explanation
Indices: 968996--969035 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
968986 TATTTTTATT
968996 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
969017 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
969036 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:969991 original size:22 final size:23
Alignment explanation
Indices: 969966--970017 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
969956 AATATCATAA
969966 TTATTAT-TT-TTATAATCAATAT
1 TTATTATATTATTATAAT-AATAT
969988 TTATTATAATTCATTATAATAATAT
1 TTATTAT-ATT-ATTATAATAATAT
970013 TTATT
1 TTATT
970018 TTATCCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.27
24 2 0.08
25 10 0.38
26 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATTATATTATTATAATAATAT
Found at i:970496 original size:21 final size:20
Alignment explanation
Indices: 970472--970515 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
970462 ATATTTTATA
970472 ATTAAATTTAAATAAAAATAT
1 ATTAAATTTAAATAAAAAT-T
* *
970493 ATT-ATTTTAATTAAAAATT
1 ATTAAATTTAAATAAAAATT
970512 ATTA
1 ATTA
970516 TTATAGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATTTAAATAAAAATT
Found at i:970507 original size:20 final size:19
Alignment explanation
Indices: 970478--970517 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
970468 TATAATTAAA
970478 TTTAAATAAAAATATATTAT
1 TTTAAATAAAAAT-TATTAT
*
970498 TTTAATTAAAAATTATTAT
1 TTTAAATAAAAATTATTAT
970517 T
1 T
970518 ATAGGTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAATAAAAATTATTAT
Found at i:971948 original size:18 final size:18
Alignment explanation
Indices: 971925--971959 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
971915 TTTTAATATT
971925 TTAAATAATAAAATAAAC
1 TTAAATAATAAAATAAAC
971943 TTAAATAATAAAATAAA
1 TTAAATAATAAAATAAA
971960 AAATTTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAATAATAAAATAAAC
Found at i:974089 original size:23 final size:23
Alignment explanation
Indices: 974063--974128 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
974053 TAAAATCTAT
974063 TATTTTATTTAAATAAATTTTTA
1 TATTTTATTTAAATAAATTTTTA
* * *
974086 TATTTT-TATTACATTTAACTTTTA
1 TATTTTAT-TTA-AATAAATTTTTA
974110 -ATTTATATTTAAATAAATT
1 TATTT-TATTTAAATAAATT
974129 ATAATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.03
23 18 0.55
24 13 0.39
25 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTATTTAAATAAATTTTTA
Found at i:974205 original size:17 final size:18
Alignment explanation
Indices: 974179--974225 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
974169 ATTTCTGTGC
974179 AAAT-AAATTTTAATCT-
1 AAATAAAATTTTAATCTA
* *
974195 AAATAAAATTTTCATTTA
1 AAATAAAATTTTAATCTA
*
974213 AAATAAAAATTTA
1 AAATAAAATTTTA
974226 TTTGAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 4 0.16
17 10 0.40
18 11 0.44
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAAAATTTTAATCTA
Found at i:974270 original size:28 final size:28
Alignment explanation
Indices: 974215--974272 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
974205 TTCATTTAAA
* * *
974215 ATAAAAATTTATTTGAATATAATAAAAT
1 ATAAAAACTTATTTGAATAAAAAAAAAT
974243 ATAAAAACTTATTT-AATAAAAAAGAAAT
1 ATAAAAACTTATTTGAATAAAAAA-AAAT
974271 AT
1 AT
974273 TTCAGCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (28 bp):
ATAAAAACTTATTTGAATAAAAAAAAAT
Found at i:977886 original size:18 final size:18
Alignment explanation
Indices: 977859--977912 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
977849 ATTGGAGTTG
*
977859 TTCATATCTTTTTCTTTC
1 TTCATATCTTTTTCTTTA
*
977877 TTCATTTCTTGTTTCTTTA
1 TTCATATCTT-TTTCTTTA
*
977896 TATCATCT-TTTTTCTTT
1 T-TCATATCTTTTTCTTT
977913 TTCTCTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 16 0.52
19 10 0.32
20 5 0.16
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.69
Consensus pattern (18 bp):
TTCATATCTTTTTCTTTA
Found at i:977924 original size:15 final size:18
Alignment explanation
Indices: 977883--977924 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
977873 TTTCTTCATT
977883 TCTTGTTTCTTTATATCA
1 TCTTGTTTCTTTATATCA
*
977901 TCTTTTTTCTTT-T-TC-
1 TCTTGTTTCTTTATATCA
977916 TCTTGTTTC
1 TCTTGTTTC
977925 CTCCAACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 8 0.36
16 2 0.09
17 1 0.05
18 11 0.50
ACGTcount: A:0.07, C:0.19, G:0.05, T:0.69
Consensus pattern (18 bp):
TCTTGTTTCTTTATATCA
Found at i:983867 original size:79 final size:76
Alignment explanation
Indices: 983775--984018 Score: 251
Period size: 79 Copynumber: 3.1 Consensus size: 76
983765 ATCGGAGTTA
* * *
983775 GAGTATCTCCTTGGAGATGGTGGGGTTGGAGTATCTCCGAGATGAAAATTTTAATATTTTGAAAG
1 GAGTATCT-CTTGGAAATGATGGGGTTGGAGTATCTCCGAGATGAAAA-TTTGATATTTTGAAA-
983840 TAAAAATGGGGTTG
63 TAAAAATGGGGTTG
* * *
983854 GAGTATCCTCTTGGAAATGATGAGGTTGGAGTAT-TCGCGATGGTGAAAA-TCGATATTTTGGAA
1 GAGTAT-CTCTTGGAAATGATGGGGTTGGAGTATCTC-CGA-GATGAAAATTTGATATTTT-GAA
*
983917 ATAAAAATAAGGGTTG
62 ATAAAAAT-GGGGTTG
* * * *
983933 GAGTATCTCTTTGGAAATGATGGGGTTTGAGTATCAT-CGAGATGAAAAATTTGGTGTTTGGGAA
1 GAGTATCTC-TTGGAAATGATGGGGTTGGAGTATC-TCCGAGATG-AAAATTTGATATTT-TGAA
*
983997 ATAAAAATGGTGTTG
62 ATAAAAATGGGGTTG
984012 GAGTATC
1 GAGTATC
984019 CCCTCAAAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
78 23 0.17
79 88 0.64
80 26 0.19
81 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.32
Consensus pattern (76 bp):
GAGTATCTCTTGGAAATGATGGGGTTGGAGTATCTCCGAGATGAAAATTTGATATTTTGAAATAA
AAATGGGGTTG
Found at i:984061 original size:158 final size:158
Alignment explanation
Indices: 983775--984059 Score: 351
Period size: 158 Copynumber: 1.8 Consensus size: 158
983765 ATCGGAGTTA
* * * *
983775 GAGTATCTCCTTGGAGATGGTGGGGTTGGAGTATCTCCGAGATGAAAATTTTAATATTTTGAAAG
1 GAGTATCTCCTTGGAAATGATGGGGTTGGAGTATCTCCGAGATGAAAAATTTAATATTTGGAAAG
* *** * * * *
983840 TAAAAATGGGGTTGGAGTATCCTCTTGGAAATGATGAGGTTGGAGTATTCGCGATGGTGAAAATC
66 TAAAAATGGGGTTGGAGTATCCCCTCAAAAATGATGAGGTTGGAGTATTCCCGAAGATAAAAATC
983905 GATATTTTGGAAATAAAAATAAGGGTTG
131 GATATTTTGGAAATAAAAATAAGGGTTG
* * ** *
983933 GAGTATCTCTTTGGAAATGATGGGGTTTGAGTATCAT-CGAGATGAAAAATTTGGTGTTTGGGAA
1 GAGTATCTCCTTGGAAATGATGGGGTTGGAGTATC-TCCGAGATGAAAAATTTAATATTT-GGAA
* * *
983997 A-TAAAAATGGTGTTGGAGTATCCCCTCAAAAATGATGAGGTTGGATTA-TCCCTAAGATAAAAA
64 AGTAAAAATGGGGTTGGAGTATCCCCTCAAAAATGATGAGGTTGGAGTATTCCCGAAGATAAAAA
984060 ATTCGGTGTT
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
157 10 0.10
158 90 0.86
159 5 0.05
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.31
Consensus pattern (158 bp):
GAGTATCTCCTTGGAAATGATGGGGTTGGAGTATCTCCGAGATGAAAAATTTAATATTTGGAAAG
TAAAAATGGGGTTGGAGTATCCCCTCAAAAATGATGAGGTTGGAGTATTCCCGAAGATAAAAATC
GATATTTTGGAAATAAAAATAAGGGTTG
Found at i:986560 original size:50 final size:51
Alignment explanation
Indices: 986472--986606 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 51
986462 GGTTTGCATG
* *
986472 TATCGATACATTGAAAAATGTATCGATACATTTGGGTC-AAAACT-AGAATA
1 TATCGATACAATG-AAAATGTATCGATACATTTTGGTCAAAAACTCAGAATA
* * *
986522 TATCTATACAATGAATAATGTATCGATATATTTTGGTCAAAAACTCAGAATG
1 TATCGATACAATGAA-AATGTATCGATACATTTTGGTCAAAAACTCAGAATA
986574 TATCGATACAAT-AGAAATGTATCGATACATTTT
1 TATCGATACAATGA-AAATGTATCGATACATTTT
986607 ATTTCCAGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 31 0.42
51 24 0.32
52 17 0.23
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (51 bp):
TATCGATACAATGAAAATGTATCGATACATTTTGGTCAAAAACTCAGAATA
Found at i:986694 original size:20 final size:21
Alignment explanation
Indices: 986669--986715 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
986659 GGTATGTATT
986669 GATACATTCACTCA-TGCATC
1 GATACATTCACTCATTGCATC
* *
986689 GATACATTCACTTATTGTATC
1 GATACATTCACTCATTGCATC
986710 GATACA
1 GATACA
986716 AATTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (21 bp):
GATACATTCACTCATTGCATC
Found at i:987758 original size:23 final size:22
Alignment explanation
Indices: 987715--987760 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
987705 TAGATGCATT
987715 TGAATTTATTCGTTTAAATTAAA
1 TGAATTTATTC-TTTAAATTAAA
987738 TGAATTTATT-TATTAATATTAAA
1 TGAATTTATTCT-TTAA-ATTAAA
987761 CAAACATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.05
22 4 0.19
23 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TGAATTTATTCTTTAAATTAAA
Found at i:989969 original size:24 final size:23
Alignment explanation
Indices: 989936--989980 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
989926 AGACAAAATA
*
989936 AAAAAAGGGATGAAGAACAGAGTG
1 AAAAAAGGGA-GAAGAAAAGAGTG
*
989960 AAAAACGGGAGAAGAAAAGAG
1 AAAAAAGGGAGAAGAAAAGAG
989981 GGAAGGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.58, C:0.04, G:0.33, T:0.04
Consensus pattern (23 bp):
AAAAAAGGGAGAAGAAAAGAGTG
Found at i:1001026 original size:19 final size:19
Alignment explanation
Indices: 1001002--1001045 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1000992 GCTCATGCTT
1001002 ATGCTTGTAACTATGTTTA
1 ATGCTTGTAACTATGTTTA
*
1001021 ATGCTTGTAATTATGTTTA
1 ATGCTTGTAACTATGTTTA
1001040 ATGCTT
1 ATGCTT
1001046 ATAAGCTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (19 bp):
ATGCTTGTAACTATGTTTA
Found at i:1001672 original size:3 final size:3
Alignment explanation
Indices: 1001664--1001726 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
1001654 TTTCAGTGAG
* *
1001664 CAT CAT CAT CAT CAT CAT CAT TAT CAT CAT CAT TAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1001712 CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT
1001727 TTTGGACTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:1008770 original size:2 final size:2
Alignment explanation
Indices: 1008763--1008797 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1008753 AACATTGAAG
*
1008763 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1008798 GTATGTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1009275 original size:15 final size:15
Alignment explanation
Indices: 1009255--1009304 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
1009245 TGTCATAATT
1009255 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
1009270 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
*
1009284 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
1009299 TTAAAA
1 TTAAAA
1009305 TTTTTTTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:1010715 original size:21 final size:21
Alignment explanation
Indices: 1010691--1010748 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
1010681 GTATTAGATC
*
1010691 AAATTTAAAATAAATT-ATTTT
1 AAATTT-AAATAAATTAAATTT
*
1010712 AAATTTAAATCAATTAAATTT
1 AAATTTAAATAAATTAAATTT
1010733 AAATTATTAAATAAAT
1 AAA-T-TTAAATAAAT
1010749 AAAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 1 0.03
23 9 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTTAAATAAATTAAATTT
Found at i:1011362 original size:16 final size:16
Alignment explanation
Indices: 1011341--1011390 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1011331 AAAATTCACA
1011341 TTATATATTTTCCTAT
1 TTATATATTTTCCTAT
**
1011357 TTATATGATTTTTTTA-
1 TTATAT-ATTTTCCTAT
1011373 TTATATATTTTCCTAT
1 TTATATATTTTCCTAT
1011389 TT
1 TT
1011391 TTCTATGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.25
16 14 0.50
17 7 0.25
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (16 bp):
TTATATATTTTCCTAT
Found at i:1011811 original size:16 final size:17
Alignment explanation
Indices: 1011792--1011851 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
1011782 TTTATTTGAA
1011792 TCAAAATAATCT-AAAT
1 TCAAAATAATCTCAAAT
* *
1011808 TCAAAATTAT-TCGAAT
1 TCAAAATAATCTCAAAT
*
1011824 TCAAAA-AAACTCAAAT
1 TCAAAATAATCTCAAAT
*
1011840 TAAAAATAATCT
1 TCAAAATAATCT
1011852 TTACTTATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 2 0.06
16 28 0.82
17 4 0.12
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (17 bp):
TCAAAATAATCTCAAAT
Found at i:1011828 original size:32 final size:31
Alignment explanation
Indices: 1011783--1011846 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
1011773 ATATATAAAT
* * *
1011783 TTATTTGAATCAAAATAA-TCTAAATTCAAAA
1 TTATTCGAATCAAAAAAACTC-AAATTAAAAA
1011814 TTATTCGAATTCAAAAAAACTCAAATTAAAAA
1 TTATTCGAA-TCAAAAAAACTCAAATTAAAAA
1011846 T
1 T
1011847 AATCTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 8 0.29
32 18 0.64
33 2 0.07
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (31 bp):
TTATTCGAATCAAAAAAACTCAAATTAAAAA
Found at i:1017389 original size:19 final size:20
Alignment explanation
Indices: 1017354--1017401 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1017344 ATTTAAAAAT
1017354 TAATAAAATACAAAATATAA
1 TAATAAAATACAAAATATAA
* *
1017374 TAATAAAAT-TAAAATATAG
1 TAATAAAATACAAAATATAA
*
1017393 TGATAAAAT
1 TAATAAAAT
1017402 GCAATATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
TAATAAAATACAAAATATAA
Found at i:1021147 original size:23 final size:23
Alignment explanation
Indices: 1021117--1021163 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1021107 TGTAAAAAAA
1021117 TGTATAACATATATCAACACTTT
1 TGTATAACATATATCAACACTTT
1021140 TGTATAACATATATCAACACTTT
1 TGTATAACATATATCAACACTTT
1021163 T
1 T
1021164 CTTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (23 bp):
TGTATAACATATATCAACACTTT
Found at i:1022218 original size:16 final size:16
Alignment explanation
Indices: 1022197--1022227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1022187 ATAATTATAG
1022197 TTATTTTATTATAATT
1 TTATTTTATTATAATT
*
1022213 TTATTTTATTTTAAT
1 TTATTTTATTATAAT
1022228 GATCAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTATTATAATT
Found at i:1023241 original size:3 final size:3
Alignment explanation
Indices: 1023233--1023261 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1023223 CACGTTCACC
1023233 GCT GCT GCT GCT GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GC
1023262 CTGAGGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.34, T:0.31
Consensus pattern (3 bp):
GCT
Found at i:1023525 original size:24 final size:23
Alignment explanation
Indices: 1023458--1023537 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
1023448 TAGCTCCGGC
* * *
1023458 TTCACTAGCTCCACTGATTTTATT
1 TTCACTGGCTCC-GTGATTCTATT
* * *
1023482 TGCACAGGCTCCAGTAATTCTATT
1 TTCACTGGCTCC-GTGATTCTATT
1023506 TTCACTGGCTCCGTTGATTCT-TGT
1 TTCACTGGCTCCG-TGATTCTAT-T
1023530 TTCACTGG
1 TTCACTGG
1023538 TTCGGACAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.96
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.41
Consensus pattern (23 bp):
TTCACTGGCTCCGTGATTCTATT
Found at i:1025461 original size:2 final size:2
Alignment explanation
Indices: 1025454--1025500 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
1025444 AAGTTACTTT
* * *
1025454 TA TA TA TA TA TA CA TA TA CA TA TA TA TA CA 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
1025496 TA TA T
1 TA TA T
1025501 TTCACCCGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1032922 original size:52 final size:52
Alignment explanation
Indices: 1032844--1032972 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1032834 CGAAATATGA
* *
1032844 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
1032896 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1032948 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1032973 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:1032985 original size:52 final size:51
Alignment explanation
Indices: 1032844--1032992 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
1032834 CGAAATATGA
*
1032844 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
1032896 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
1032948 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1032993 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1032999 original size:13 final size:13
Alignment explanation
Indices: 1032981--1033005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032971 CAAAGATCAG
1032981 TGTATCGATACAA
1 TGTATCGATACAA
1032994 TGTATCGATACA
1 TGTATCGATACA
1033006 TTTAAGTAAT
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:1033083 original size:33 final size:33
Alignment explanation
Indices: 1033046--1033112 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1033036 AGTAGCTTAA
1033046 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1033079 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1033112 A
1 A
1033113 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1033086 original size:13 final size:13
Alignment explanation
Indices: 1033068--1033092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1033058 CAAAAAAATA
1033068 TGTATCGATACAT
1 TGTATCGATACAT
1033081 TGTATCGATACA
1 TGTATCGATACA
1033093 ACACTTTATG
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:1035901 original size:34 final size:34
Alignment explanation
Indices: 1035853--1035949 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 34
1035843 ATAAGTTTAT
1035853 CTAACACACCTAATATGTTTACCTAAAATACCAC
1 CTAACACACCTAATATGTTTACCTAAAATACCAC
* * *
1035887 CTAACACACTTAATATATTACTCACCTAACATACCAC
1 CTAACACACCTAATATGTT--T-ACCTAAAATACCAC
*
1035924 CTAACACACCTAATGTGTTTACCTAA
1 CTAACACACCTAATATGTTTACCTAA
1035950 CACACTTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
34 23 0.43
35 1 0.02
36 1 0.02
37 29 0.54
ACGTcount: A:0.39, C:0.30, G:0.03, T:0.28
Consensus pattern (34 bp):
CTAACACACCTAATATGTTTACCTAAAATACCAC
Found at i:1038458 original size:21 final size:20
Alignment explanation
Indices: 1038421--1038460 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1038411 AGCATATTAA
**
1038421 AAAATTATTTTTTTATTTTT
1 AAAATTATTTTAATATTTTT
1038441 AAAATTATTTTAAATATTTT
1 AAAATTATTTT-AATATTTT
1038461 GTACTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AAAATTATTTTAATATTTTT
Found at i:1042152 original size:16 final size:16
Alignment explanation
Indices: 1042127--1042232 Score: 95
Period size: 16 Copynumber: 6.6 Consensus size: 16
1042117 TAAAATCGAT
*
1042127 TAATTTAAATTTGAAA
1 TAATTTAAATTTAAAA
* *
1042143 TAACTTAAATTTAGAA
1 TAATTTAAATTTAAAA
*
1042159 TAATTTAAGTTTAAAA
1 TAATTTAAATTTAAAA
* * * *
1042175 TAAATAAAACTCAAAA
1 TAATTTAAATTTAAAA
* * **
1042191 TAACTAAAATCCAAAA
1 TAATTTAAATTTAAAA
*
1042207 TAATTTAAATTTTAAA
1 TAATTTAAATTTAAAA
1042223 TAATTTAAAT
1 TAATTTAAAT
1042233 AATTAACTTA
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 71 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.37
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:1042216 original size:9 final size:9
Alignment explanation
Indices: 1042204--1042236 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1042194 CTAAAATCCA
1042204 AAATAATTT
1 AAATAATTT
1042213 AAAT--TTT
1 AAATAATTT
1042220 AAATAATTT
1 AAATAATTT
1042229 AAATAATT
1 AAATAATT
1042237 AACTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AAATAATTT
Found at i:1042343 original size:22 final size:21
Alignment explanation
Indices: 1042307--1042348 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1042297 TAATCTTGAC
1042307 TTAATTAACTCAAATATTAAAT
1 TTAATTAACTCAAAT-TTAAAT
* *
1042329 TTAATTAATTTAAATTTAAA
1 TTAATTAACTCAAATTTAAA
1042349 ATAATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAATTAACTCAAATTTAAAT
Found at i:1042358 original size:31 final size:31
Alignment explanation
Indices: 1042323--1042451 Score: 145
Period size: 31 Copynumber: 4.1 Consensus size: 31
1042313 AACTCAAATA
*
1042323 TTAAATTTAATTAATTTAAATTTAAAATAAT
1 TTAAATTTAAATAATTTAAATTTAAAATAAT
* * * *
1042354 TTAAATATAATTAATTTAAAATAAAAATAAT
1 TTAAATTTAAATAATTTAAATTTAAAATAAT
* *
1042385 TTGAAATTAAAATAATTTAAATTTAAAA-ATT
1 TT-AAATTTAAATAATTTAAATTTAAAATAAT
*
1042416 TTATAATTTAAAATAATTT-AATTTAAATTAAT
1 TTA-AATTT-AAATAATTTAAATTTAAAATAAT
1042448 TTAA
1 TTAA
1042452 GTTAAAATCA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.01
31 47 0.57
32 34 0.41
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (31 bp):
TTAAATTTAAATAATTTAAATTTAAAATAAT
Found at i:1042395 original size:47 final size:47
Alignment explanation
Indices: 1042334--1042451 Score: 141
Period size: 47 Copynumber: 2.5 Consensus size: 47
1042324 TAAATTTAAT
*
1042334 TAATTTAAATTTAAAATAATTTAAATATAATTAA-TTTA-AAATAAAAA
1 TAATTTAAA-TTAAAATAATTTAAATATAA-AAATTTTATAAATAAAAA
* * *
1042381 TAATTTGAAATTAAAATAATTTAAATTTAAAAATTTTATAATTTAAAA
1 TAATTT-AAATTAAAATAATTTAAATATAAAAATTTTATAAATAAAAA
* *
1042429 TAATTTAATTTAAATTAATTTAA
1 TAATTTAAATTAAAATAATTTAA
1042452 GTTAAAATCA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 2 0.03
47 44 0.71
48 16 0.26
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (47 bp):
TAATTTAAATTAAAATAATTTAAATATAAAAATTTTATAAATAAAAA
Found at i:1042456 original size:15 final size:16
Alignment explanation
Indices: 1042323--1042464 Score: 143
Period size: 16 Copynumber: 9.1 Consensus size: 16
1042313 AACTCAAATA
*
1042323 TTAAATTT-AATTAAT
1 TTAAATTTAAAATAAT
1042338 TTAAATTTAAAATAAT
1 TTAAATTTAAAATAAT
* *
1042354 TTAAATAT-AATTAAT
1 TTAAATTTAAAATAAT
* *
1042369 TTAAAATAAAAATAAT
1 TTAAATTTAAAATAAT
1042385 TTGAAA-TTAAAATAAT
1 TT-AAATTTAAAATAAT
*
1042401 TTAAATTTAAAA-ATT
1 TTAAATTTAAAATAAT
1042416 TTATAATTTAAAATAAT
1 TTA-AATTTAAAATAAT
*
1042433 TT-AATTTAAATTAAT
1 TTAAATTTAAAATAAT
*
1042448 TT-AAGTTAAAATCAAT
1 TTAAATTTAAAAT-AAT
1042464 T
1 T
1042465 CAACCCCTAA
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
15 49 0.46
16 51 0.48
17 7 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:1042782 original size:16 final size:17
Alignment explanation
Indices: 1042753--1042784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1042743 TATTTAATTT
1042753 TTTTAAAAATTTATATA
1 TTTTAAAAATTTATATA
1042770 TTTTAAAAA-TTATAT
1 TTTTAAAAATTTATAT
1042785 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAAAAATTTATATA
Found at i:1043031 original size:2 final size:2
Alignment explanation
Indices: 1043024--1043068 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1043014 TAGTATTAAA
1043024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1043066 AT A
1 AT A
1043069 AAAGTGGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1043220 original size:37 final size:37
Alignment explanation
Indices: 1043164--1043238 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
1043154 CCTCTCTCAA
1043164 AAAACCGACAAAAATCCATTTGTAAAGTAAGCGAAGC
1 AAAACCGACAAAAATCCATTTGTAAAGTAAGCGAAGC
*
1043201 AAAACCGAC-GAAATGCCATTTGTAAAGTAAGCGAAGC
1 AAAACCGACAAAAAT-CCATTTGTAAAGTAAGCGAAGC
1043238 A
1 A
1043239 CCGAGCAGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (37 bp):
AAAACCGACAAAAATCCATTTGTAAAGTAAGCGAAGC
Found at i:1052660 original size:9 final size:9
Alignment explanation
Indices: 1052641--1052673 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1052631 ATCCTTTCAT
1052641 AAAAT-ATA
1 AAAATAATA
1052649 AAAATAATA
1 AAAATAATA
1052658 AAAATAATA
1 AAAATAATA
*
1052667 ATAATAA
1 AAAATAA
1052674 AATAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATAATA
Found at i:1052664 original size:15 final size:16
Alignment explanation
Indices: 1052639--1052677 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
1052629 ATATCCTTTC
1052639 ATAAAATATAAAAATA
1 ATAAAATATAAAAATA
*
1052655 ATAAAA-ATAATAATA
1 ATAAAATATAAAAATA
1052670 ATAAAATA
1 ATAAAATA
1052678 ATATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAATATAAAAATA
Found at i:1058755 original size:19 final size:19
Alignment explanation
Indices: 1058731--1058813 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
1058721 TTTCAACGAT
1058731 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1058750 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1058764 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
1058782 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
1058801 TTGTATCGATACA
1 TTGTATCGATACA
1058814 ATGTATCGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
13 11 0.19
15 2 0.04
17 2 0.04
19 42 0.74
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1058768 original size:32 final size:32
Alignment explanation
Indices: 1058732--1058794 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1058722 TTCAACGATT
1058732 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1058764 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
1058795 TAAGTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1058769 original size:13 final size:13
Alignment explanation
Indices: 1058751--1058775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1058741 ACATAAGTGT
1058751 TGTATCGATACAA
1 TGTATCGATACAA
1058764 TGTATCGATACA
1 TGTATCGATACA
1058776 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:1070544 original size:52 final size:51
Alignment explanation
Indices: 1070459--1070582 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
1070449 ATATGAAAAG
* *
1070459 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
1070510 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
1070562 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1070583 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:1070595 original size:51 final size:51
Alignment explanation
Indices: 1070459--1070602 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
1070449 ATATGAAAAG
*
1070459 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
1070511 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1070562 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1070603 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1070609 original size:13 final size:13
Alignment explanation
Indices: 1070591--1070615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1070581 CAAAGATCAG
1070591 TGTATCGATACAA
1 TGTATCGATACAA
1070604 TGTATCGATACA
1 TGTATCGATACA
1070616 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:1070694 original size:33 final size:33
Alignment explanation
Indices: 1070657--1070722 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1070647 GTAGCTTAAC
1070657 TTGTATCGATACAAAAAAATATGTATCGATACA
1 TTGTATCGATACAAAAAAATATGTATCGATACA
* ***
1070690 TTGTATCGATACAACATTTTATGTATCGATACA
1 TTGTATCGATACAAAAAAATATGTATCGATACA
1070723 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACAAAAAAATATGTATCGATACA
Found at i:1070696 original size:13 final size:13
Alignment explanation
Indices: 1070678--1070702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1070668 CAAAAAAATA
1070678 TGTATCGATACAT
1 TGTATCGATACAT
1070691 TGTATCGATACA
1 TGTATCGATACA
1070703 ACATTTTATG
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:1071688 original size:22 final size:22
Alignment explanation
Indices: 1071663--1071731 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
1071653 ATGCTGATTC
1071663 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
1071685 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
1071706 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1071728 AAGG
1 AAGG
1071732 TGAAGGTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1071757 original size:49 final size:49
Alignment explanation
Indices: 1071539--1071825 Score: 302
Period size: 49 Copynumber: 5.8 Consensus size: 49
1071529 GTGATAAAGA
* * * *
1071539 TGCCAATATG-TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCT-GATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * *
1071593 ATGTCAATGTGCTGATTCAAGGCCAGCTACATT-GATCTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGA-CTTAAAGAT-G--AAGG
1071646 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
1071689 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
1071738 TGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
1071787 TGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1071826 GAAGGGTTGC
Statistics
Matches: 203, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
43 41 0.20
48 1 0.00
49 85 0.42
52 32 0.16
53 8 0.04
54 2 0.01
55 33 0.16
56 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:1071852 original size:30 final size:30
Alignment explanation
Indices: 1071818--1072022 Score: 103
Period size: 30 Copynumber: 7.0 Consensus size: 30
1071808 CCAGCTATAT
*
1071818 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
*
1071848 TGGGCTTTGGAAAAGGG-TGCCACTGA-TT-TG
1 TGGGC-TT--AGAAGGGTTGCCACTGACTTGTG
*
1071878 TGGGCTTTGAA-GGTTGCCACTGAC-T-TG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
** * *
1071905 TGGGCTTTTAAAGGTTGCCACTAAC-T-TG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
* ***
1071933 TGGGCTTTTGAAAAATATGCCACTGAC-T-TG
1 TGGGC-TTAGAAGGGT-TGCCACTGACTTGTG
* *
1071963 TGGGCTTTTGAACAGGG-TGCCACTAAC-T-TG
1 TGGGC-TTAG-A-AGGGTTGCCACTGACTTGTG
** *
1071993 TGGGCTTTTAAAGGTTGCCACTGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
1072023 GGCTTTTGAA
Statistics
Matches: 145, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
26 2 0.01
27 27 0.19
28 30 0.21
29 13 0.09
30 53 0.37
31 5 0.03
32 9 0.06
33 6 0.04
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.32
Consensus pattern (30 bp):
TGGGCTTAGAAGGGTTGCCACTGACTTGTG
Found at i:1072012 original size:58 final size:59
Alignment explanation
Indices: 1071830--1072298 Score: 329
Period size: 58 Copynumber: 8.0 Consensus size: 59
1071820 GGCTTAGAAG
* * * *
1071830 GGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AA
1 GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
*
1071889 GGTTGCCACTGACTTGTGGGCTTTT--AAAGGTTGCCACTAACTTGTGGGCTTTTGAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
** *
1071946 AATATGCCACTGACTTGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTT-AAA
1 GGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
*** *
1072005 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTG-AAA
* * * * * * **
1072065 GGGTGCCACTAACTTGTGGGC---TGAAAAGAGTGCTA-TAGAGTTGTGAGCTTACAAAAGAAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTA-ACTTGTGGGCTT----TTG--AA
1072126 A
59 A
* * * * * ** **
1072127 GAG-TGCCACGGAGTTGTGGACTTTGGAAAA-GATGCCACCGACTTGTGGGCTTCGGAAAA
1 G-GTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTG-AAA
* * * * *
1072186 GGGTGCCACTGATTTGTGGGC-TTTG--AAGGTTGCCACTGACTTGTGGGCTTTCGAAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
*** * *** * *
1072242 AAATGCCACCGACTTGTGGGC-TTTGAAAAAAATGCCACTGACTTGTGGACTTTTGAA
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAA
1072299 GGGTGATGAA
Statistics
Matches: 329, Mismatches: 59, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
55 21 0.06
56 30 0.09
57 54 0.16
58 99 0.30
59 36 0.11
60 49 0.15
61 1 0.00
62 19 0.06
63 1 0.00
64 14 0.04
65 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (59 bp):
GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAA
Found at i:1072020 original size:88 final size:87
Alignment explanation
Indices: 1071830--1072086 Score: 383
Period size: 88 Copynumber: 2.9 Consensus size: 87
1071820 GGCTTAGAAG
* * *** * *
1071830 GGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTT
1 GGTTGCCACTGAC-T-TGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGT
*
1071893 GCCACTGACTTGTGGGCTTTTAAA
64 GCCACTAACTTGTGGGCTTTTAAA
*
1071917 GGTTGCCACTAACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAACAGGGTG
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAA-AGGGTG
1071982 CCACTAACTTGTGGGCTTTTAAA
65 CCACTAACTTGTGGGCTTTTAAA
1072005 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTG
1 GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTG-AAAGGGTG
1072070 CCACTAACTTGTGGGCT
65 CCACTAACTTGTGGGCT
1072087 GAAAAGAGTG
Statistics
Matches: 156, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
85 32 0.21
86 5 0.03
87 12 0.08
88 105 0.67
89 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (87 bp):
GGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGTGC
CACTAACTTGTGGGCTTTTAAA
Found at i:1072044 original size:30 final size:30
Alignment explanation
Indices: 1071846--1072298 Score: 375
Period size: 30 Copynumber: 15.5 Consensus size: 30
1071836 CACCGACTTG
* * *
1071846 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1071876 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* *
1071903 TGTGGGCTTTT--AAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
**
1071931 TGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* * *
1071961 TGTGGGCTTTTGAACAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1071991 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
**
1072019 TGTGGGCTTTTGAAAAATATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* *
1072049 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* *
1072079 TGTGGGC---TGAAAA-GAGTGCTA-TAGAGT
1 TGTGGGCTTTTGAAAAGGA-TGCCACT-GACT
* ** * * *
1072106 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT----TTGAAAAGGA-TGCCACTGACT
* * *
1072141 TGTGGACTTTGGAAAA-GATGCCACCGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
** * *
1072170 TGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1072200 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
* * *
1072227 TGTGGGCTTTCGAAAA-AATGCCACCGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
**
1072256 TGTGGGC-TTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGATGCCACTGACT
*
1072285 TGTGGACTTTTGAA
1 TGTGGGCTTTTGAA
1072299 GGGTGATGAA
Statistics
Matches: 347, Mismatches: 53, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.01
27 60 0.17
28 64 0.18
29 63 0.18
30 130 0.37
31 5 0.01
34 5 0.01
35 18 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGATGCCACTGACT
Found at i:1072172 original size:29 final size:29
Alignment explanation
Indices: 1072123--1072294 Score: 177
Period size: 29 Copynumber: 5.9 Consensus size: 29
1072113 TTACAAAAGA
* * *
1072123 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
1072153 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1072182 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
1072211 -AAGGTTGCCACTGACTTGTGGGCTTTCG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
1072239 AAAAAATGCCACCGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1072268 AAAAAATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
1072295 TGAAGGGTGA
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
27 21 0.17
28 3 0.03
29 71 0.59
30 25 0.21
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:1072230 original size:121 final size:115
Alignment explanation
Indices: 1072008--1072289 Score: 298
Period size: 121 Copynumber: 2.4 Consensus size: 115
1071998 TTTTAAAGGT
* * **
1072008 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCA
1 TGCCACCGACTTGTGGGC-TTTGAAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCA
* *
1072073 CTAACTTGTGGGCTGAAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGAAAAAGA
65 CTAACTTGTGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTAC----GAAAAA-A
* * * * * *
1072129 GTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCA
1 -TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCA
* * *** * *
1072194 CTGATTTGTGGGCTTTGAAG-GTTGCCACT-GACTTGTGGGCTTTCGAAAAAA
65 CTAACTTGTGGGCTGAAAAGAG-TGCCA-TAGACTTGTGAGCTTACGAAAAAA
1072245 TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGG
1 TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGG
1072290 ACTTTTGAAG
Statistics
Matches: 135, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
115 39 0.29
116 1 0.01
117 6 0.04
120 1 0.01
121 72 0.53
122 16 0.12
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (115 bp):
TGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCAC
TAACTTGTGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTACGAAAAAA
Found at i:1072242 original size:86 final size:86
Alignment explanation
Indices: 1072130--1072300 Score: 227
Period size: 86 Copynumber: 2.0 Consensus size: 86
1072120 AGAAAAAGAG
* * * ***
1072130 TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACGGACTTGTGGACTTTCGAAAAAATGCCACCGACTTGTGGGCTT-GGAAAAAAATGCCAC
* *
1072195 TGATTTGTGGGC-TTTGAAGGT
65 TGACTTGTGGACTTTTGAAGGT
* * *
1072216 TGCCACTGACTTGTGGGCTTTCGAAAAAATGCCACCGACTTGTGGGCTTTGAAAAAAATGCCACT
1 TGCCACGGACTTGTGGACTTTCGAAAAAATGCCACCGACTTGTGGGCTTGGAAAAAAATGCCACT
1072281 GACTTGTGGACTTTTGAAGG
66 GACTTGTGGACTTTTGAAGG
1072301 GTGATGAATG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 21 0.29
86 52 0.71
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (86 bp):
TGCCACGGACTTGTGGACTTTCGAAAAAATGCCACCGACTTGTGGGCTTGGAAAAAAATGCCACT
GACTTGTGGACTTTTGAAGGT
Found at i:1073740 original size:1 final size:1
Alignment explanation
Indices: 1073736--1073851 Score: 79
Period size: 1 Copynumber: 116.0 Consensus size: 1
1073726 CCGGACCCCC
* * * * * * * ** * *
1073736 TTTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTGTTTTTTTTTCCTTTTGTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
1073801 TTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1073852 GGAGGACGCC
Statistics
Matches: 87, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 87 1.00
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:1073769 original size:12 final size:11
Alignment explanation
Indices: 1073736--1073849 Score: 90
Period size: 12 Copynumber: 9.6 Consensus size: 11
1073726 CCGGACCCCC
1073736 TTTTTTTG-TT
1 TTTTTTTGTTT
*
1073746 TTTGTTTGTTT
1 TTTTTTTGTTT
*
1073757 TTTTATTGTTT
1 TTTTTTTGTTT
1073768 TTGTTTTTGTTT
1 TT-TTTTTGTTT
1073780 TTTTTTCCT-TTT
1 TTTTTT--TGTTT
1073792 GTTTTTTTGTTTT
1 -TTTTTTTG-TTT
1073805 TTTTTTTGGTTTTT
1 TTTTTTT-G--TTT
1073819 CATTTTTTTCGTTT
1 --TTTTTTT-GTTT
1073833 TTTTTTT-TTT
1 TTTTTTTGTTT
1073843 TTTTTTT
1 TTTTTTT
1073850 TTGGAGGACG
Statistics
Matches: 88, Mismatches: 5, Indels: 22
0.77 0.04 0.19
Matches are distributed among these distances:
10 17 0.19
11 18 0.20
12 27 0.31
13 11 0.12
14 7 0.08
16 8 0.09
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1073785 original size:43 final size:40
Alignment explanation
Indices: 1073745--1073852 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 40
1073735 CTTTTTTTGT
** **
1073745 TTTTGTTTGTTTTTTTATTGTTTTTGTTTTTGTTTTTTTTTCC
1 TTTTGTTT-TTTTTTT-TT-TTTTTGTTTTTCATTTTTTTTGT
*
1073788 TTTTGTTTTTTTGTTTTTTTTTTTGGTTTTTCATTTTTTTCGT
1 TTTTG-TTTTTT-TTTTTTTTTTT-GTTTTTCATTTTTTTTGT
1073831 TTTT-TTTTTTTTTTTTTTTTTG
1 TTTTGTTTTTTTTTTTTTTTTTG
1073853 GAGGACGCCG
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 1 0.02
40 11 0.19
41 6 0.11
42 5 0.09
43 27 0.47
44 7 0.12
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (40 bp):
TTTTGTTTTTTTTTTTTTTTTTGTTTTTCATTTTTTTTGT
Found at i:1073833 original size:37 final size:35
Alignment explanation
Indices: 1073736--1073851 Score: 116
Period size: 36 Copynumber: 3.3 Consensus size: 35
1073726 CCGGACCCCC
* * *
1073736 TTTTTTTGTTTTTGTTTGTTT--TTTTATTGTTTT
1 TTTTTTTGTTTTTTTTTCTTTCGTTTTTTTGTTTT
* *
1073769 TGTTTTTGTTTTTTTTTCCTTTTGTTTTTTTGTTTT
1 TTTTTTTGTTTTTTTTT-CTTTCGTTTTTTTGTTTT
1073805 TTTTTTTGGTTTTTCATTTT-TTTCGTTTTTTT-TTTT
1 TTTTTTT-GTTTTT--TTTTCTTTCGTTTTTTTGTTTT
1073841 TTTTTTT-TTTT
1 TTTTTTTGTTTT
1073852 GGAGGACGCC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
33 15 0.21
34 7 0.10
36 28 0.39
37 17 0.24
39 4 0.06
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.85
Consensus pattern (35 bp):
TTTTTTTGTTTTTTTTTCTTTCGTTTTTTTGTTTT
Found at i:1079826 original size:21 final size:22
Alignment explanation
Indices: 1079798--1079850 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1079788 GAAGATGCTG
1079798 AACA-AGCTGT-AAATGCATGA
1 AACATAGCTGTAAAATGCATGA
1079818 AACATAGCT-TAAAATGCATGA
1 AACATAGCTGTAAAATGCATGA
*
1079839 ATCATGAGCTGT
1 AACAT-AGCTGT
1079851 TAACATGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.18
21 18 0.64
22 4 0.14
23 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (22 bp):
AACATAGCTGTAAAATGCATGA
Found at i:1080831 original size:52 final size:52
Alignment explanation
Indices: 1080683--1080811 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1080673 CGAAATATGA
1080683 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1080735 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1080787 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1080812 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1080929 original size:32 final size:32
Alignment explanation
Indices: 1080871--1080941 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
1080861 AGCTTCGTAG
* *
1080871 CGATACATTATATTGATATAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* * *
1080903 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
1080935 CGATACA
1 CGATACA
1080942 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:1083307 original size:26 final size:27
Alignment explanation
Indices: 1083278--1083391 Score: 108
Period size: 27 Copynumber: 4.1 Consensus size: 27
1083268 TGCGTCCTCC
*
1083278 AAAAA-AAAAACAAACAAA-ACAAAAA
1 AAAAACAAAAAAAAACAAACACAAAAA
*
1083303 AAAAAGAAAAAAAAACAAACACAAAAA
1 AAAAACAAAAAAAAACAAACACAAAAA
* *
1083330 AAAAACAAAAAAAGGGAAAGAAACAAAAAAA
1 AAAAAC-AAAAAA---AAACAAACACAAAAA
*
1083361 ACAAACACAAAAAAAAACAAA-ACAACAA
1 A-AAA-ACAAAAAAAAACAAACACAAAAA
1083389 AAA
1 AAA
1083392 GGGTCCGGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
25 5 0.07
26 12 0.16
27 14 0.19
28 12 0.16
29 6 0.08
31 14 0.19
32 9 0.12
33 2 0.03
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (27 bp):
AAAAACAAAAAAAAACAAACACAAAAA
Found at i:1083315 original size:30 final size:28
Alignment explanation
Indices: 1083278--1083391 Score: 111
Period size: 30 Copynumber: 3.8 Consensus size: 28
1083268 TGCGTCCTCC
1083278 AAAAAAAAAACAAACAAAACAAAAAAAAA
1 AAAAAAAAAACAAACAAAA-AAAAAAAAA
1083307 AGAAAAAAAAACAAACACAAAAAAAAAACAA
1 A-AAAAAAAAACAAACA-AAAAAAAAAA-AA
** * *
1083338 AAAAAGGGAAAGAAACAAAAAAAACAAACA
1 AAAAA-AAAAACAAACAAAAAAAA-AAAAA
* *
1083368 CAAAAAAAAACAAAACAACAAAAA
1 AAAAAAAAAAC-AAACAAAAAAAA
1083392 GGGTCCGGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
29 4 0.06
30 49 0.70
31 17 0.24
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAACAAACAAAAAAAAAAAAA
Found at i:1083329 original size:44 final size:42
Alignment explanation
Indices: 1083281--1083391 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 42
1083271 GTCCTCCAAA
1083281 AAAAAAACAAACAAAACAAAAAAAAAAGAAAAAAAAACAAACAC
1 AAAAAAA-AAACAAAACAAAAAAAAAA-AAAAAAAAACAAACAC
* *
1083325 AAAAAAAAAACAAAA-AAAGGGAAAGAAACAAAAAAAACAAACAC
1 AAAAAAAAAACAAAACAAA---AAAAAAAAAAAAAAAACAAACAC
*
1083369 -AAAAAAAAACAAAACAACAAAAA
1 AAAAAAAAAACAAAACAAAAAAAA
1083392 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
41 4 0.07
42 3 0.05
43 22 0.37
44 24 0.41
45 6 0.10
ACGTcount: A:0.83, C:0.13, G:0.05, T:0.00
Consensus pattern (42 bp):
AAAAAAAAAACAAAACAAAAAAAAAAAAAAAAAAACAAACAC
Found at i:1083361 original size:1 final size:1
Alignment explanation
Indices: 1083278--1083342 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
1083268 TGCGTCCTCC
* * * * * * * *
1083278 AAAAAAAAAACAAACAAAACAAAAAAAAAAGAAAAAAAAACAAACACAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1083343 GGGAAAGAAA
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1084866 original size:29 final size:30
Alignment explanation
Indices: 1084827--1084966 Score: 146
Period size: 30 Copynumber: 4.7 Consensus size: 30
1084817 TCACCCTTCA
*
1084827 AAAGCCCACAAGTTAGTGGCA-TCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTTC
1084856 AAAGCCCACAAGTCAGTGGCAAC-C---TTC
1 AAAGCCCACAAGTCAGTGGC-ACTCTTTTTC
* * *
1084883 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTTC
*
1084913 AAAGCCCACAAGTCAGTGGCACCTTTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-C--TCTTTTTC
* *
1084946 AAAGCCCACAAATTAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1084967 ACCTTCAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.02
27 23 0.25
29 19 0.20
30 24 0.26
31 1 0.01
33 24 0.26
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACTCTTTTTC
Found at i:1084916 original size:57 final size:56
Alignment explanation
Indices: 1084821--1084937 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 56
1084811 CATTCCTCAC
* * * *
1084821 CCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGC-A
1084878 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 CCTTCAAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCA
1084934 CCTT
1 CCTT
1084938 TTTTTTTCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 24 0.44
57 31 0.56
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (56 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCA
Found at i:1085012 original size:61 final size:61
Alignment explanation
Indices: 1084883--1085026 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 61
1084873 GGCAACCTTC
* * *
1084883 AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTTTTTT
1 AAAGCCCACAAATCAGTGGCAACC-TTTCAAAAGCCCACAAGTCAGTGGCACATTTTTTTTT
* * * * *
1084945 CAAAGCCCACAAATTAGTGGCAACC-TTCAAAAGCTCACAAGTCCGTGGTATATTTTTACTTTT
1 -AAAGCCCACAAATCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCACATTTTT--TTTT
* *
1085008 -AAGCCCACAATTCTGTGGC
1 AAAGCCCACAAATCAGTGGC
1085027 GCCTTTTCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
61 42 0.62
63 26 0.38
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (61 bp):
AAAGCCCACAAATCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCACATTTTTTTTT
Found at i:1085058 original size:32 final size:32
Alignment explanation
Indices: 1085004--1085064 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
1084994 ATATTTTTAC
** * *
1085004 TTTTAAGCCCACAATTCTGTGGCGCCTTTTCT
1 TTTTAAGCCCACAACGCCGTGGCACCTTTTCT
*
1085036 TTTTAAGTCCACAACGCCGTGGCACCTTT
1 TTTTAAGCCCACAACGCCGTGGCACCTTT
1085065 AAAACCAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (32 bp):
TTTTAAGCCCACAACGCCGTGGCACCTTTTCT
Found at i:1085129 original size:48 final size:48
Alignment explanation
Indices: 1085061--1085333 Score: 160
Period size: 48 Copynumber: 5.9 Consensus size: 48
1085051 GCCGTGGCAC
* * *
1085061 CTTTAAAACCAATATTGCTGGCCTTGAATTAACATATTGGCACCTTGT
1 CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTGT
* * *
1085109 CTTTCAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
1 CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTGT
** * ** * * *
1085152 CTTTAAGTCCAATATCGCTGGCCTTGAATTAGTATATTGGCGTCTTTGGCAT
1 CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGC-ACCTT-G--T
* * * * *
1085204 CTTTAAGACCAATATTGCTGGCCTTGAATCAGCACATTGGCA--TAGG
1 CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTGT
* ** **
1085250 C-------CCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGT
1 CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTGT
* * * *
1085291 CTTTAAATCCAATGTCGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGCAC
1085334 AAGTCCAATA
Statistics
Matches: 171, Mismatches: 36, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
39 29 0.17
41 3 0.02
43 34 0.20
46 1 0.01
47 1 0.01
48 66 0.39
49 1 0.01
52 36 0.21
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (48 bp):
CTTTAAAACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTGT
Found at i:1085243 original size:52 final size:52
Alignment explanation
Indices: 1085145--1085244 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
1085135 AATCAGCACA
* * * *
1085145 TTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATTAGTATATTGGCGTCT
1 TTGGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCGTCT
* *
1085197 TTGGCATCTTTAAGACCAATATTGCTGGCCTTGAATCAGCACATTGGC
1 TTGGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC
1085245 ATAGGCCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (52 bp):
TTGGCACCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCGTCT
Found at i:1085325 original size:87 final size:86
Alignment explanation
Indices: 1085069--1085371 Score: 345
Period size: 87 Copynumber: 3.4 Consensus size: 86
1085059 ACCTTTAAAA
* * *
1085069 CCAATATTGCTGGCCTTGAATTAACATATTGGCACCTTGTCTTTCAAACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTT-AAACCAATGTCGCTGGCCTT
1085134 GAATCAGCACATTGGCACCTTTAAGT
65 GAATCAGCACATTGGCA----TAAGT
* * * * * *
1085160 CCAATATCGCTGGCCTTGAATTAGTATATTGGCGTCTTTGGCATCTTTAAGACCAATATTGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTT-G--TCTTTAA-ACCAATGTCGCTGG
* *
1085225 CCTTGAATCAGCACATTGGCATAGGC
61 CCTTGAATCAGCACATTGGCATAAGT
* * *
1085251 CCAATATCGCTGGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAATCCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAA-CCAATGTCGCTGGCCTT
* *
1085316 GAATTAGCACATTGGCACAAGT
65 GAATCAGCACATTGGCATAAGT
* *
1085338 CCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1085372 TCTTTATCAC
Statistics
Matches: 179, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
86 1 0.01
87 69 0.39
89 1 0.01
90 3 0.02
91 61 0.34
92 3 0.02
93 1 0.01
94 2 0.01
95 38 0.21
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (86 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAACCAATGTCGCTGGCCTTG
AATCAGCACATTGGCATAAGT
Found at i:1085575 original size:156 final size:156
Alignment explanation
Indices: 1085291--1085720 Score: 736
Period size: 156 Copynumber: 2.7 Consensus size: 156
1085281 GGCACCTTGT
*
1085291 CTTTAAATCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACAAGTCCAATATCGTTGGCCGTG
1 CTTTAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCGTG
*
1085356 AATCAGCATATTGGCATCTTTATCACTTTTCTCACCTTCATCTTTAAGTCAAATATCGTTGGCCT
66 AATCAGCATATTGGCATCTTTATCACTTTTCTCACCTTCATCTTTAAGTCAAATATCATTGGCCT
1085421 TGAATTAG-AGTATTGGCATCTTTAAC
131 TGAATTAGCA-TATTGGCATCTTTAAC
1085447 CTTTAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCGTG
1 CTTTAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCGTG
*
1085512 AATCAGCATATTGGCATCTTTATCACTTTTCTCACCTTCATCTTTAAGTCTAATATCATTGGCCT
66 AATCAGCATATTGGCATCTTTATCACTTTTCTCACCTTCATCTTTAAGTCAAATATCATTGGCCT
1085577 TGAATTAGCATATTGGCATCTTTAAC
131 TGAATTAGCATATTGGCATCTTTAAC
* *
1085603 CTTTAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCCTA
1 CTTTAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCGTG
* * * *
1085668 AATCAGTATATTGGCACCTTAATCACTCTTCTCATCCTCATCATCTTTAAGTC
66 AATCAGCATATTGGCATCTTTATCACTTTTCTCA-CCT--TCATCTTTAAGTC
1085721 CAATGTTGCA
Statistics
Matches: 261, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
156 244 0.93
157 4 0.02
159 13 0.05
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (156 bp):
CTTTAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGTTGGCCGTG
AATCAGCATATTGGCATCTTTATCACTTTTCTCACCTTCATCTTTAAGTCAAATATCATTGGCCT
TGAATTAGCATATTGGCATCTTTAAC
Found at i:1085664 original size:39 final size:39
Alignment explanation
Indices: 1085610--1085684 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
1085600 AACCTTTAAA
* * *
1085610 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAG
1 TCCAATATCGCTGGCCCTAAATCAGCACATTGGCACAAG
* * *
1085649 TCCAATATCGTTGGCCCTAAATCAGTATATTGGCAC
1 TCCAATATCGCTGGCCCTAAATCAGCACATTGGCAC
1085685 CTTAATCACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
TCCAATATCGCTGGCCCTAAATCAGCACATTGGCACAAG
Found at i:1086391 original size:13 final size:13
Alignment explanation
Indices: 1086371--1086406 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1086361 AAGATTAGTG
1086371 TATCGATACAATA
1 TATCGATACAATA
* *
1086384 TTTCGATACAATG
1 TATCGATACAATA
1086397 TATCGATACA
1 TATCGATACA
1086407 TAAGTTTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1086492 original size:13 final size:13
Alignment explanation
Indices: 1086474--1086498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1086464 ATACATTAGA
1086474 TGTATCGATACAT
1 TGTATCGATACAT
1086487 TGTATCGATACA
1 TGTATCGATACA
1086499 CTAATCTTTG
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:1090745 original size:15 final size:15
Alignment explanation
Indices: 1090725--1090755 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1090715 TGGCATCAAC
1090725 AACCTTTATTCAAAT
1 AACCTTTATTCAAAT
1090740 AACCTTTATTCAAAT
1 AACCTTTATTCAAAT
1090755 A
1 A
1090756 GCTATAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
AACCTTTATTCAAAT
Found at i:1098272 original size:130 final size:130
Alignment explanation
Indices: 1098096--1098350 Score: 415
Period size: 130 Copynumber: 2.0 Consensus size: 130
1098086 GTGGCATGAA
*
1098096 AAAGAAAATGTCATGAAAAAGATGGATATATGTCTCAAAATAGTTGTAAATACTCTTCAAAAGAT
1 AAAGAAAATGTCATGAAAAAGATGGATACATGTCTCAAAATAGTTGTAAATACTCTTCAAAAGAT
* * *
1098161 -TTTCAATAAAGAAAGTTGCCAATGGATGAATTAAGCTGAAATATATCTTTTATCATACTTTACC
66 CCTT-AATAAAGAAAGTTACCAATGGATGAATTAAGCTGAAATATATCCTTTATCATACTTTACC
1098225 C
130 C
*
1098226 AAAGAAAATGTCATGAAAAAGAAT-GATACATGTCTTAAAATAGTTGTAAATACTCTTCAAAAGA
1 AAAGAAAATGTCATGAAAAAG-ATGGATACATGTCTCAAAATAGTTGTAAATACTCTTCAAAAGA
* *
1098290 TCCTTAATAAAGAAAGTTACCAATGGGTGAATTAAGCTGCAATATATCCTTTATCATACTT
65 TCCTTAATAAAGAAAGTTACCAATGGATGAATTAAGCTGAAATATATCCTTTATCATACTT
1098351 GACTCAAGCC
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
130 112 0.97
131 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (130 bp):
AAAGAAAATGTCATGAAAAAGATGGATACATGTCTCAAAATAGTTGTAAATACTCTTCAAAAGAT
CCTTAATAAAGAAAGTTACCAATGGATGAATTAAGCTGAAATATATCCTTTATCATACTTTACCC
Found at i:1101254 original size:30 final size:30
Alignment explanation
Indices: 1101218--1101274 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1101208 GCATAAAAAG
1101218 CTTGATTTACCTCAAGTTTGATAGTATTGA
1 CTTGATTTACCTCAAGTTTGATAGTATTGA
*
1101248 CTTGATTTACCTCAAGTTTGATGGTAT
1 CTTGATTTACCTCAAGTTTGATAGTAT
1101275 CGAGTGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (30 bp):
CTTGATTTACCTCAAGTTTGATAGTATTGA
Found at i:1106046 original size:15 final size:16
Alignment explanation
Indices: 1106026--1106062 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1106016 TGATGAATTA
1106026 TTTAAAATTTAA-CTT
1 TTTAAAATTTAATCTT
*
1106041 TTT-AAATTTAATTTT
1 TTTAAAATTTAATCTT
1106056 TTTAAAA
1 TTTAAAA
1106063 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 8 0.42
16 3 0.16
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAATTTAATCTT
Found at i:1107251 original size:43 final size:43
Alignment explanation
Indices: 1107203--1107294 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
1107193 AACTCACTTA
* * * *
1107203 TATCAAGAATAACATTTATATAAATATTAATAGCAATTGTTGG
1 TATCAAAAAGAACATTCATATAAATATTAATAGCAATTGTTGC
* *
1107246 TATCAAAAAGAACATTCATATATATGTTAATAGCAATTGTTGC
1 TATCAAAAAGAACATTCATATAAATATTAATAGCAATTGTTGC
1107289 TATCAA
1 TATCAA
1107295 TAAGCTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (43 bp):
TATCAAAAAGAACATTCATATAAATATTAATAGCAATTGTTGC
Found at i:1110847 original size:18 final size:19
Alignment explanation
Indices: 1110823--1110872 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
1110813 TTAATATCTA
1110823 ATAATATAATATAATTTAT
1 ATAATATAATATAATTTAT
* *
1110842 -TAATATATTAAAATTTAT
1 ATAATATAATATAATTTAT
1110860 ATAA-ATTAATATA
1 ATAATA-TAATATA
1110873 GAATATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATATAATATAATTTAT
Found at i:1110905 original size:26 final size:26
Alignment explanation
Indices: 1110859--1110919 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
1110849 TTAAAATTTA
*
1110859 TATAAATTAATATAGAATATTTTAAT
1 TATAAATTAATATAGAATATTTAAAT
* *
1110885 TATAAATATGATATA-AGTATTTAAAT
1 TATAAAT-TAATATAGAATATTTAAAT
1110911 TATTAAATT
1 TA-TAAATT
1110920 TTACTGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (26 bp):
TATAAATTAATATAGAATATTTAAAT
Found at i:1111569 original size:20 final size:20
Alignment explanation
Indices: 1111546--1111583 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1111536 TTATCAAAAA
*
1111546 TTAAGTAAAAATAATATATT
1 TTAAATAAAAATAATATATT
1111566 TTAAATAAAAATAATATA
1 TTAAATAAAAATAATATA
1111584 AGTTAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTAAATAAAAATAATATATT
Found at i:1111589 original size:20 final size:20
Alignment explanation
Indices: 1111546--1111589 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1111536 TTATCAAAAA
* **
1111546 TTAAGTAAAAATAATATATT
1 TTAAATAAAAATAATATAAG
1111566 TTAAATAAAAATAATATAAG
1 TTAAATAAAAATAATATAAG
1111586 TTAA
1 TTAA
1111590 TCTAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TTAAATAAAAATAATATAAG
Found at i:1111735 original size:15 final size:14
Alignment explanation
Indices: 1111711--1111741 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1111701 ATATATATAT
1111711 ATATATTTAACTTA
1 ATATATTTAACTTA
1111725 ATATGATTTAACTTA
1 ATAT-ATTTAACTTA
1111740 AT
1 AT
1111742 TTATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (14 bp):
ATATATTTAACTTA
Found at i:1112099 original size:16 final size:16
Alignment explanation
Indices: 1112080--1112196 Score: 55
Period size: 16 Copynumber: 7.3 Consensus size: 16
1112070 ACTTAAACTC
1112080 GAAATGACTCGAACCT
1 GAAATGACTCGAACCT
* *
1112096 GAAAT-AATCCGAA-TT
1 GAAATGACT-CGAACCT
* *
1112111 TAGAATAACTCGAACCT
1 GA-AATGACTCGAACCT
* *
1112128 GAAATGA-TCAAAATCT
1 GAAATGACTC-GAACCT
* *
1112144 GAAATAACTCGAACTT
1 GAAATGACTCGAACCT
* *
1112160 AAAATGA-TCCGAA-TT
1 GAAATGACT-CGAACCT
*
1112175 CGAAATGATTCGAACCT
1 -GAAATGACTCGAACCT
1112192 GAAAT
1 GAAAT
1112197 AACCTGAATA
Statistics
Matches: 74, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
15 9 0.12
16 57 0.77
17 8 0.11
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (16 bp):
GAAATGACTCGAACCT
Found at i:1112127 original size:32 final size:32
Alignment explanation
Indices: 1112080--1112198 Score: 123
Period size: 32 Copynumber: 3.7 Consensus size: 32
1112070 ACTTAAACTC
*
1112080 GAAATGACTCGAACCTGAAATAATCCGAATTT
1 GAAATAACTCGAACCTGAAATAATCCGAATTT
* ** *
1112112 -AGAATAACTCGAACCTGAAATGATCAAAATCT
1 GA-AATAACTCGAACCTGAAATAATCCGAATTT
* * * *
1112144 GAAATAACTCGAACTTAAAATGATCCGAATTC
1 GAAATAACTCGAACCTGAAATAATCCGAATTT
* *
1112176 GAAATGATTCGAACCTGAAATAA
1 GAAATAACTCGAACCTGAAATAA
1112199 CCTGAATAAT
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
31 1 0.01
32 67 0.97
33 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.24
Consensus pattern (32 bp):
GAAATAACTCGAACCTGAAATAATCCGAATTT
Found at i:1112132 original size:48 final size:47
Alignment explanation
Indices: 1112075--1112199 Score: 121
Period size: 48 Copynumber: 2.6 Consensus size: 47
1112065 AACTGACTTA
* *
1112075 AACTCGAAATGACTCGAACCTGAAATAA-TCCGAATTTAGAATAA-CTCG
1 AACTCGAAATGA-TCGAACCTGAAATAACT-CGAACTTAAAATAATC-CG
* * *
1112123 AAC-CTGAAATGATCAAAATCTGAAATAACTCGAACTTAAAATGATCCG
1 AACTC-GAAATGATC-GAACCTGAAATAACTCGAACTTAAAATAATCCG
*
1112171 AATTCGAAATGATTCGAACCTGAAATAAC
1 AACTCGAAATGA-TCGAACCTGAAATAAC
1112200 CTGAATAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
47 3 0.05
48 55 0.87
49 5 0.08
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (47 bp):
AACTCGAAATGATCGAACCTGAAATAACTCGAACTTAAAATAATCCG
Found at i:1112296 original size:21 final size:22
Alignment explanation
Indices: 1112261--1112301 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1112251 TAAAAAAATC
*
1112261 AAGTTAATAAAATAATATTTAT
1 AAGTTAATAAAATAAAATTTAT
*
1112283 AAGTT-ATAATATAAAATTT
1 AAGTTAATAAAATAAAATTT
1112302 TGAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
AAGTTAATAAAATAAAATTTAT
Found at i:1113325 original size:32 final size:33
Alignment explanation
Indices: 1113275--1113352 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
1113265 AAATGACTTG
* * * *
1113275 AACTCGAAACAA-TCCGAATTTAAAATGATTCA
1 AACTCGAAATAACTCCGAATCTAAAATAATCCA
*
1113307 AACTCGAAATAACT-CGAATCTAAAGTAATCCA
1 AACTCGAAATAACTCCGAATCTAAAATAATCCA
*
1113339 AACTCAAAATAACT
1 AACTCGAAATAACT
1113353 TAAATCTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (33 bp):
AACTCGAAATAACTCCGAATCTAAAATAATCCA
Found at i:1113471 original size:16 final size:15
Alignment explanation
Indices: 1113435--1113474 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1113425 TTTATAATTC
*
1113435 AAAATAACTTAACTT
1 AAAATAATTTAACTT
*
1113450 AAAATAATTTTACTT
1 AAAATAATTTAACTT
1113465 AAAAATAATT
1 -AAAATAATT
1113475 ACTTTCACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATAATTTAACTT
Found at i:1113727 original size:12 final size:13
Alignment explanation
Indices: 1113723--1113766 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
1113713 AAAATTATTA
1113723 ATAAATAATAATAT
1 ATAAATAA-AATAT
*
1113737 ATTAATAAAAT-T
1 ATAAATAAAATAT
1113749 ATAAATAAAATAT
1 ATAAATAAAATAT
*
1113762 CTAAA
1 ATAAA
1113767 AATTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.42
13 8 0.31
14 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAATAAAATAT
Found at i:1120826 original size:2 final size:2
Alignment explanation
Indices: 1120819--1120856 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1120809 TAAGAGTGGA
*
1120819 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1120857 GCATGTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1122680 original size:17 final size:17
Alignment explanation
Indices: 1122658--1122690 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1122648 CTACGGCATC
1122658 TGATAGAATTATTTTTG
1 TGATAGAATTATTTTTG
1122675 TGATAGAATTATTTTT
1 TGATAGAATTATTTTT
1122691 AACGTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
TGATAGAATTATTTTTG
Done.