Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008499.1 Hibiscus syriacus cultivar Beakdansim tig00111344_pilon, whole genome shotgun sequence
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: 291584
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:355 original size:112 final size:111
Alignment explanation
Indices: 1--546 Score: 840
Period size: 112 Copynumber: 5.0 Consensus size: 111
1 TGAGCAAAAGGTTGAACAAGCTCTCTCTCATTATGAACTTCTTCTTCCTTCTTCAG-TGAGTTCT
1 TGAGCAAAAGGTTGAACAAGCTCT-TCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCT
*
65 TCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATT
64 TCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATT
*
113 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAACTTTTCTTCCTTCTTCAGATGA-TTCTT
1 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATG-AACTCTTCTTCCTTCTTCAGATGAGTTCTT
177 C-TATTATGAACTTCTCT-G-AAAGCTGATCCATCAAGTGAT-GATT
65 CTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATT
220 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTC
285 TTATTATGAACTTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGA-T
66 TTATTATGAAC--TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATT
332 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT-TTCTTCCTTCTTC--ATGAGTTCTTC
1 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
394 TTATTATG-ACTTCT-TGGGGAAAGC-GATCCATCAAGTGAT-GATT
66 TTATTATGAACTTCTCT-GGAAAAGCTGATCCATCAAGTGATGGATT
437 TGAGCAAAAGGTTGAACAAGCT-TTCTCATTAT-AACTTCTTCTTCCTTCTTCAGATGA-TTCTT
1 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTT
* * *
499 CTCATTATGAACTTTCTCTAGAAAAGCTAATCCATC-AGTGATGGATT
65 CTTATTATGAAC-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATT
546 T
1 T
547 AAATCTTTGC
Statistics
Matches: 406, Mismatches: 8, Indels: 43
0.89 0.02 0.09
Matches are distributed among these distances:
103 3 0.01
104 13 0.03
105 52 0.13
106 47 0.12
107 50 0.12
108 48 0.12
109 33 0.08
110 22 0.05
111 46 0.11
112 90 0.22
113 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (111 bp):
TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTC
TTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATT
Found at i:438 original size:217 final size:218
Alignment explanation
Indices: 1--545 Score: 882
Period size: 217 Copynumber: 2.5 Consensus size: 218
1 TGAGCAAAAGGTTGAACAAGCTCTCTCTCATTATGAACTTCTTCTTCCTTCTTCAG-TGAGTTCT
1 TGAGCAAAAGGTTGAACAAGCTCT-TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
65 TCTTATTATGAAC-TTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAA
65 TCTTATTATGAACTTTCTCTGGAAAAGCTGATCCATC-AGTGATGGA-TTGAGCAAAAGGTTGAA
129 CAAGCTCTTCTCATTATGAAACTTTTCTTCCTTCTTCAGATGATTCTTCTATTATGAACTTCTCT
128 CAAGCTCTTCTCATTATGAAACTTTTCTTCCTTCTTCAGATGATTCTTCTATTATGAACTTCTCT
194 GAAAGCTGATCCATCAAGTGATGATT
193 GAAAGCTGATCCATCAAGTGATGATT
220 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTT
1 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
284 CTTATTATGAACTTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTGAGCAAAAGGTTGAAC
66 CTTATTATGAAC-TTTCTCTGGAAAAGCTGATCCATC-AGTGATGGATTGAGCAAAAGGTTGAAC
349 AAGCTCTTCTCATTATG-AAC-TTTCTTCCTTCTTC--ATGAGTTCTTCTTATTATG-ACTTCT-
129 AAGCTCTTCTCATTATGAAACTTTTCTTCCTTCTTCAGATGA-TTCTTC-TATTATGAACTTCTC
408 TGGGGAAAGC-GATCCATCAAGTGATGATT
192 T---GAAAGCTGATCCATCAAGTGATGATT
437 TGAGCAAAAGGTTGAACAAGCT-TTCTCATTAT-AACTTCTTCTTCCTTCTTCAGATGA-TTCTT
1 TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* * *
499 CTCATTATGAACTTTCTCTAGAAAAGCTAATCCATCAGTGATGGATT
66 CTTATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGTGATGGATT
546 TAAATCTTTG
Statistics
Matches: 313, Mismatches: 4, Indels: 24
0.92 0.01 0.07
Matches are distributed among these distances:
213 11 0.04
214 22 0.07
215 24 0.08
216 43 0.14
217 79 0.25
218 43 0.14
219 59 0.19
220 32 0.10
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (218 bp):
TGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
CTTATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGTGATGGATTGAGCAAAAGGTTGAACAA
GCTCTTCTCATTATGAAACTTTTCTTCCTTCTTCAGATGATTCTTCTATTATGAACTTCTCTGAA
AGCTGATCCATCAAGTGATGATT
Found at i:1558 original size:81 final size:81
Alignment explanation
Indices: 1388--1679 Score: 472
Period size: 81 Copynumber: 3.7 Consensus size: 81
1378 TCTGTGGTCA
* *
1388 TACCAAAAC-GATCAG--AACTCAAAGAACACTTCCA-AAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC-TTACTCTTCC
1449 AAATTC-ATGATTGATT
65 AAATTCAATGATTGATT
* *
1465 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACTTATTCTTCC-
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACTTACTCTTCCA
1529 AATTCAATGATTGATTT
66 AATTCAATGATTGA-TT
1546 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACTTACTCTTCCA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACTTACTCTTCCA
1611 AATTCAATGATTGATT
66 AATTCAATGATTGATT
*
1627 TACCAAACCAGATCAGATAACTC-AAGAACACTTCCAGAAGATACTATGAGCAC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
1680 ATGACATTTG
Statistics
Matches: 202, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
77 8 0.04
78 6 0.03
79 5 0.02
80 64 0.32
81 105 0.52
82 14 0.07
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (81 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACTTACTCTTCCA
AATTCAATGATTGATT
Found at i:1610 original size:161 final size:158
Alignment explanation
Indices: 1388--1679 Score: 489
Period size: 161 Copynumber: 1.8 Consensus size: 158
1378 TCTGTGGTCA
*
1388 TACCAAAACGATCAGAACTCAAAGAACACTTCCAAAGATGCTATGAGCACATTCCTCTTCCAAAT
1 TACCAAAACGATCAGAACTCAAAGAACACTTCCAAAGATGCTATGAGCACATTACTCTTCCAAAT
* *
1453 TC-ATGATTGATTTACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
66 TCAATGATTGATTTACCAAACCAGATCAGATAACTC-AAGAACACTTCCAGAAGATACTATGAGC
1517 ACTTATTCTTCCAATTCAATGATTGATTT
130 ACTTATTCTTCCAATTCAATGATTGATTT
*
1546 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC-TTACTCTTCC
1 TACCAAAAC-GATCAG--AACTCAAAGAACACTTCCA-AAGATGCTATGAGCACATTACTCTTCC
1610 AAATTCAATGATTGATTTACCAAACCAGATCAGATAACTCAAGAACACTTCCAGAAGATACTATG
62 AAATTCAATGATTGATTTACCAAACCAGATCAGATAACTCAAGAACACTTCCAGAAGATACTATG
1675 AGCAC
127 AGCAC
1680 ATGACATTTG
Statistics
Matches: 125, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
158 8 0.06
159 6 0.05
161 63 0.50
162 48 0.38
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (158 bp):
TACCAAAACGATCAGAACTCAAAGAACACTTCCAAAGATGCTATGAGCACATTACTCTTCCAAAT
TCAATGATTGATTTACCAAACCAGATCAGATAACTCAAGAACACTTCCAGAAGATACTATGAGCA
CTTATTCTTCCAATTCAATGATTGATTT
Found at i:2690 original size:16 final size:18
Alignment explanation
Indices: 2652--2696 Score: 67
Period size: 16 Copynumber: 2.6 Consensus size: 18
2642 TTCATAGAAG
*
2652 AATAAATTGAATTTTCAA
1 AATAAATTGAATTCTCAA
2670 AATAAATTGAA-TCTC-A
1 AATAAATTGAATTCTCAA
2686 AATAAATTGAA
1 AATAAATTGAA
2697 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
17 3 0.12
18 11 0.42
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (18 bp):
AATAAATTGAATTCTCAA
Found at i:3028 original size:1 final size:1
Alignment explanation
Indices: 3024--3082 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
3014 CTTTTTTTCC
* * * * * * *
3024 TTTTTCTTTCTTTTTTTTTTCTTTTCTTTTTTCTTTTTTTTCTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3083 CTCTTCAAGC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:3041 original size:21 final size:20
Alignment explanation
Indices: 3015--3083 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
3005 CTTGACCCCC
3015 TTTTTTTCCTTTTTCTTTCTT
1 TTTTTTTCCTTTTTCTTT-TT
*
3036 TTTTTTTTC-TTTTCTTTTTT
1 TTTTTTTCCTTTTTC-TTTTT
*
3056 CTTTTTTTTCTTTTT-TTTTT
1 -TTTTTTTCCTTTTTCTTTTT
*
3076 TCTTTTTC
1 TTTTTTTC
3084 TCTTCAAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.14
20 12 0.29
21 20 0.48
22 4 0.10
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTTCCTTTTTCTTTTT
Found at i:3043 original size:16 final size:16
Alignment explanation
Indices: 3024--3080 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
3014 CTTTTTTTCC
3024 TTTTTCTTTC-TTTTT
1 TTTTTCTTTCTTTTTT
3039 TTTTTCTTTTCTTTTTT
1 TTTTTC-TTTCTTTTTT
3056 CTTTTT-TTTCTTTTTT
1 -TTTTTCTTTCTTTTTT
3072 TTTTTCTTT
1 TTTTTCTTT
3081 TTCTCTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.29
16 17 0.45
17 5 0.13
18 5 0.13
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTCTTTCTTTTTT
Found at i:3048 original size:27 final size:27
Alignment explanation
Indices: 3018--3084 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
3008 GACCCCCTTT
3018 TTTTCCTTTTTCTTTCTTTTT-TTTTTC
1 TTTTCCTTTTTCTTT-TTTTTCTTTTTC
* *
3045 TTTTCTTTTTTCTTTTTTTTCTTTTTT
1 TTTTCCTTTTTCTTTTTTTTCTTTTTC
*
3072 TTTTTCTTTTTCT
1 TTTTCCTTTTTCT
3085 CTTCAAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.14
27 30 0.86
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (27 bp):
TTTTCCTTTTTCTTTTTTTTCTTTTTC
Found at i:3054 original size:33 final size:33
Alignment explanation
Indices: 3017--3081 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3007 TGACCCCCTT
3017 TTTTTCCTTTTTCTTTC-TTTTTTTTTTCTTTTC
1 TTTTTCCTTTTT-TTTCTTTTTTTTTTTCTTTTC
*
3050 TTTTTTCTTTTTTTTCTTTTTTTTTTTCTTTT
1 TTTTTCCTTTTTTTTCTTTTTTTTTTTCTTTT
3082 TCTCTTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (33 bp):
TTTTTCCTTTTTTTTCTTTTTTTTTTTCTTTTC
Found at i:3082 original size:12 final size:11
Alignment explanation
Indices: 3015--3082 Score: 93
Period size: 11 Copynumber: 6.2 Consensus size: 11
3005 CTTGACCCCC
*
3015 TTTTTTTCCTT
1 TTTTTTTCTTT
*
3026 TTTCTTTCTTT
1 TTTTTTTCTTT
3037 TTTTTTTCTTT
1 TTTTTTTCTTT
3048 TCTTTTTTCTTT
1 T-TTTTTTCTTT
*
3060 TTTTTCT-TTT
1 TTTTTTTCTTT
3070 TTTTTTTCTTT
1 TTTTTTTCTTT
3081 TT
1 TT
3083 CTCTTCAAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
10 9 0.18
11 30 0.60
12 11 0.22
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:10330 original size:15 final size:15
Alignment explanation
Indices: 10307--10338 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10297 TGAAATGAAT
10307 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
10322 AATGCATGTATGCAA
1 AATGAATGTATGCAA
10337 AA
1 AA
10339 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:15768 original size:3 final size:3
Alignment explanation
Indices: 15743--15839 Score: 131
Period size: 3 Copynumber: 31.7 Consensus size: 3
15733 TTGGGTTTTG
* * *
15743 TAA TAT TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TTA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
15790 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15838 TA
1 TA
15840 TAAATAACAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
3 78 0.93
4 6 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:15846 original size:18 final size:18
Alignment explanation
Indices: 15754--15839 Score: 145
Period size: 18 Copynumber: 4.7 Consensus size: 18
15744 AATATTAATA
*
15754 AATAATATATAATAATAAT
1 AATAATA-ATAATAATTAT
*
15773 AATAATAATAATTATTAT
1 AATAATAATAATAATTAT
15791 AATAATAATAATAATTAT
1 AATAATAATAATAATTAT
15809 AATAATAATAATAATTAT
1 AATAATAATAATAATTAT
15827 AATAATAATAATA
1 AATAATAATAATA
15840 TAAATAACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
18 57 0.89
19 7 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATAATAATAATTAT
Found at i:18444 original size:14 final size:14
Alignment explanation
Indices: 18425--18452 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18415 ATATTTTAAG
18425 TTCATCCTCAAATT
1 TTCATCCTCAAATT
18439 TTCATCCTCAAATT
1 TTCATCCTCAAATT
18453 ATGGCTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
TTCATCCTCAAATT
Found at i:18500 original size:56 final size:57
Alignment explanation
Indices: 18438--18553 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 57
18428 ATCCTCAAAT
* * * *
18438 TTTCATCCTCAAATTATG-GCTCTTCTAAATTAATCCTTAAATTTTGAACATTCTAA
1 TTTCATCCTCAAACTATGAGCTCTTCTAAATTAATCCTCAAACTTTGAACATTCCAA
* * ** *
18494 TTTCATCCTTAAACTATGACTCTCTTCTAAATTGGTCCTCAAACTTTGAATATTCCAA
1 TTTCATCCTCAAACTATGA-GCTCTTCTAAATTAATCCTCAAACTTTGAACATTCCAA
18552 TT
1 TT
18554 CTATCCCTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 16 0.33
58 33 0.67
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (57 bp):
TTTCATCCTCAAACTATGAGCTCTTCTAAATTAATCCTCAAACTTTGAACATTCCAA
Found at i:21240 original size:27 final size:27
Alignment explanation
Indices: 21210--21262 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
21200 GGACAATCAT
*
21210 CACCACCATGAACATCACCATCACCAG
1 CACCACCACGAACATCACCATCACCAG
21237 CACCACCACGAACATCACCATCACCA
1 CACCACCACGAACATCACCATCACCA
21263 TTACAGCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.47, G:0.06, T:0.09
Consensus pattern (27 bp):
CACCACCACGAACATCACCATCACCAG
Found at i:21255 original size:15 final size:15
Alignment explanation
Indices: 21207--21256 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
21197 GGGGGACAAT
*
21207 CATCACCACCATGAA
1 CATCACCACCACGAA
*
21222 CATCACCATCAC---
1 CATCACCACCACGAA
*
21234 CAGCACCACCACGAA
1 CATCACCACCACGAA
21249 CATCACCA
1 CATCACCA
21257 TCACCATTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
12 10 0.37
15 17 0.63
ACGTcount: A:0.38, C:0.46, G:0.06, T:0.10
Consensus pattern (15 bp):
CATCACCACCACGAA
Found at i:26068 original size:76 final size:77
Alignment explanation
Indices: 25909--26118 Score: 284
Period size: 76 Copynumber: 2.8 Consensus size: 77
25899 CAAAGCCAAA
* * * **
25909 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
25973 TTTTGGCCCCGAG
65 TTTTGGCCCCGAG
*
25986 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
26051 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * *
26062 AATTCCAGTATGCTCGGAGGGAACCGA-TCCCCCC-TAAGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCAT-AGGAGGAACCGATTCCCCCCT
26119 TGTACAACGG
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
74 1 0.01
75 26 0.22
76 54 0.45
77 39 0.32
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:31939 original size:21 final size:21
Alignment explanation
Indices: 31913--31952 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31903 CCCCCTTTGA
*
31913 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
31934 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
31953 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:34643 original size:75 final size:76
Alignment explanation
Indices: 34494--34698 Score: 272
Period size: 75 Copynumber: 2.7 Consensus size: 76
34484 CAAAGCCAAA
* * * * **
34494 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCATAGGTGGAACCGATT-CCCCCTAAATGGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
34558 TTGGCCCCGAG
66 TTGGCCCCGAG
*
34569 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
*
34634 TT-GCTCCGAG
66 TTGGCCCCGAG
* * * *
34644 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCC
34699 TTGTACAACG
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
75 95 0.83
76 20 0.17
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TTGGCCCCGAG
Found at i:36700 original size:5 final size:5
Alignment explanation
Indices: 36690--36828 Score: 228
Period size: 5 Copynumber: 27.4 Consensus size: 5
36680 CGTAGGGTGC
36690 ATATT ATATT ATATT ATATT ATATT ATATT ATATTT ATTATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA-TT A-TATT ATATT ATATT
36742 ATATT ATATTAT ATATT ATATT ATATT ATATT ATA-T ATATT ATATT ATATT
1 ATATT ATA-T-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
36793 ATATT ATATT ATA-T ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
36829 TATAGTTATG
Statistics
Matches: 128, Mismatches: 0, Indels: 12
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.06
5 106 0.83
6 8 0.06
7 6 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:36737 original size:27 final size:26
Alignment explanation
Indices: 36690--36831 Score: 231
Period size: 24 Copynumber: 5.6 Consensus size: 26
36680 CGTAGGGTGC
36690 ATATTATATTA-TATTATATTATATT
1 ATATTATATTATTATTATATTATATT
36715 ATATTATATTTATTATTATATTATATT
1 ATATTATA-TTATTATTATATTATATT
36742 ATATTATATTATATATTATATTATATT
1 ATATTATATTAT-TATTATATTATATT
36769 ATATTATA-TA-TATTATATTATATT
1 ATATTATATTATTATTATATTATATT
36793 ATATTATATTA-TA-TATATTATATT
1 ATATTATATTATTATTATATTATATT
36817 ATATTATATTATTAT
1 ATATTATATTATTAT
36832 AGTTATGTGA
Statistics
Matches: 111, Mismatches: 0, Indels: 11
0.91 0.00 0.09
Matches are distributed among these distances:
24 44 0.40
25 14 0.13
26 9 0.08
27 44 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATATTATATTATTATTATATTATATT
Found at i:36957 original size:16 final size:16
Alignment explanation
Indices: 36936--36969 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36926 TGTGGTTATA
36936 ATATATATATAT-GTGT
1 ATATATAT-TATGGTGT
36952 ATATATATTATGGTGT
1 ATATATATTATGGTGT
36968 AT
1 AT
36970 GTAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (16 bp):
ATATATATTATGGTGT
Found at i:39955 original size:14 final size:15
Alignment explanation
Indices: 39924--39961 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
39914 AGAATATAAA
*
39924 AAAAAATTTAACTTAT
1 AAAAAATTTAAC-AAT
39940 AAAAAATTTAA-AAT
1 AAAAAATTTAACAAT
39954 AAAAAATT
1 AAAAAATT
39962 ATAGCAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
16 11 0.52
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATTTAACAAT
Found at i:42099 original size:3 final size:3
Alignment explanation
Indices: 42089--42131 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
42079 ATACTTCAAG
42089 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
42132 GGTTAACTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:53222 original size:35 final size:35
Alignment explanation
Indices: 53176--53247 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
53166 CCAACAAAGA
*
53176 AGAGTTGGATTAGGACTCAAATACTAGTCTATAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
53211 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
53246 AG
1 AG
53248 GGTTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:53843 original size:22 final size:23
Alignment explanation
Indices: 53818--53863 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
53808 CTTTTATTTC
*
53818 TTTTTTTA-TTTATTAC-TATTA
1 TTTTTTTATTTTAATACTTATTA
53839 TTTTTTTATTTTAATACTTATTA
1 TTTTTTTATTTTAATACTTATTA
53862 TT
1 TT
53864 ACTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTTATTTTAATACTTATTA
Found at i:54123 original size:12 final size:12
Alignment explanation
Indices: 54093--54126 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
54083 TTCCTCATTA
*
54093 TTTTTATTATTG
1 TTTTTTTTATTG
54105 -TTTTTTTATTG
1 TTTTTTTTATTG
54116 TTTTTTTTATT
1 TTTTTTTTATT
54127 ATTAGATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTTTTATTG
Found at i:54199 original size:33 final size:33
Alignment explanation
Indices: 54136--54197 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
54126 TATTAGATTC
54136 TTTACTTCATTCTTTTTTCTTGTTTATTTTACT
1 TTTACTTCATTCTTTTTTCTTGTTTATTTTACT
* *
54169 TTTACTTC-TT-TTATTTTCTTATTTTTTTT
1 TTTACTTCATTCTT-TTTTCTTGTTTATTTT
54198 TATCTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 2 0.08
32 16 0.62
33 8 0.31
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (33 bp):
TTTACTTCATTCTTTTTTCTTGTTTATTTTACT
Found at i:65507 original size:109 final size:109
Alignment explanation
Indices: 65316--65762 Score: 788
Period size: 109 Copynumber: 4.1 Consensus size: 109
65306 GGGCTATCCG
* *
65316 CGATTTCAACCCCACGACGGAGGATATCGTGCTACCCGAGACAAAACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
*
65381 AAGGGACGGCTGGTTGTCGAA-GAACAACTTCCCAATTTCAGAGC
66 AAGGGACGGCTGGTTGTC-AACAAACAACTTCCCAATTTCAGAGC
65425 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
* *
65490 AAGGGACGGCTAGTTGTCAACAAACAACTTCCCAATTTCAGAGT
66 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
65534 CGATTTCAATTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
65599 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
66 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
65643 TGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
* * *
65708 AAGGGACGGTTGGTTATCAACAAACAACTTCCCAATTTCAGAGT
66 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
65752 CGATTTCAACT
1 CGATTTCAACT
65763 TGTATTGGAT
Statistics
Matches: 323, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
108 2 0.01
109 321 0.99
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (109 bp):
CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
Found at i:66261 original size:35 final size:35
Alignment explanation
Indices: 66215--66286 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
66205 CCAACAAAGA
*
66215 AGAGTTGGATTAGGACTCAAATACTAGTCTATAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
66250 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
66285 AG
1 AG
66287 GGTTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:66809 original size:2 final size:2
Alignment explanation
Indices: 66802--66832 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66792 TACTTTATTT
66802 TA TA TA TA TA TA TA 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 T
66833 TTTACTTTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66899 original size:22 final size:22
Alignment explanation
Indices: 66875--66917 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
66865 TTTATTTCTT
*
66875 TTTTTTA-TTTATTAC-TATTA
1 TTTTTTATTTTAATACTTATTA
66895 TTTTTTATTTTAATACTTATTA
1 TTTTTTATTTTAATACTTATTA
66917 T
1 T
66918 ACTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTATTTTAATACTTATTA
Found at i:67046 original size:18 final size:18
Alignment explanation
Indices: 67004--67047 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
66994 GCTATTAACG
* *
67004 TATA-TATTTATATTTTA
1 TATATTATTTATAATTGA
67021 TA-ATTATTTATAATTGA
1 TATATTATTTATAATTGA
67038 TATATTATTT
1 TATATTATTT
67048 TACTTTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 15 0.65
18 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATTATTTATAATTGA
Found at i:69783 original size:35 final size:35
Alignment explanation
Indices: 69732--69799 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
69722 AACATAGTCC
*
69732 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
* *
69767 TCAATTACATTTTAAACCCCAAATTCTAAAATA
1 TCAATTACATTCTAAACCCCAAATTCCAAAATA
69800 CTTTAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:72009 original size:30 final size:30
Alignment explanation
Indices: 71954--72011 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
71944 AGAGTTGAGG
*
71954 GTTACCTATGTCCTTCGGGATATATGGACA
1 GTTACCTATGTCCTTCGGGACATATGGACA
*
71984 GTTACCTATGTTCTTC-GGAGCATATGGA
1 GTTACCTATGTCCTTCGGGA-CATATGGA
72012 TAGGTCCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGGACATATGGACA
Found at i:75106 original size:13 final size:13
Alignment explanation
Indices: 75088--75114 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75078 CGTAATACAC
75088 ATATATATATATA
1 ATATATATATATA
75101 ATATATATATATA
1 ATATATATATATA
75114 A
1 A
75115 CCCATTTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:75592 original size:6 final size:6
Alignment explanation
Indices: 75581--75606 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
75571 TACATGTTTC
75581 AAGATA AAGATA AAGATA AAGATA AA
1 AAGATA AAGATA AAGATA AAGATA AA
75607 CAGGACAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAGATA
Found at i:79194 original size:12 final size:12
Alignment explanation
Indices: 79177--79202 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
79167 GGAATATAAT
79177 ATCATTTAAAAA
1 ATCATTTAAAAA
79189 ATCATTTAAAAA
1 ATCATTTAAAAA
79201 AT
1 AT
79203 AAATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (12 bp):
ATCATTTAAAAA
Found at i:79650 original size:32 final size:32
Alignment explanation
Indices: 79582--79652 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
79572 TGTTGACCTG
*
79582 AACT-AAAAACTGATCGATTTGATATTGAATC
1 AACTCAAAAACTGATCAATTTGATATTGAATC
* *
79613 GACTCAAAAATTGATCAATTTGATATTG-ATC
1 AACTCAAAAACTGATCAATTTGATATTGAATC
79644 TAACTCAAA
1 -AACTCAAA
79653 TCGATCAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.18
32 28 0.82
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.32
Consensus pattern (32 bp):
AACTCAAAAACTGATCAATTTGATATTGAATC
Found at i:79661 original size:30 final size:29
Alignment explanation
Indices: 79593--79701 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 29
79583 ACTAAAAACT
* * *
79593 GATCGATTTGATATTGAATCGACTCAAAAATT
1 GATCAATTTGATATTG-ATCAACTC--AAATC
79625 GATCAATTTGATATTGATCTAACTCAAATC
1 GATCAATTTGATATTGATC-AACTCAAATC
* * * * *
79655 GATCAATCTAATAATAATCGAACTAAAATC
1 GATCAATTTGATATTGATC-AACTCAAATC
* *
79685 AATCAACTTGATATTGA
1 GATCAATTTGATATTGA
79702 CCAAATCCAA
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
30 39 0.64
31 3 0.05
32 19 0.31
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (29 bp):
GATCAATTTGATATTGATCAACTCAAATC
Found at i:81739 original size:16 final size:17
Alignment explanation
Indices: 81718--81759 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
81708 CATGTAAAAG
81718 AAATATTTAAATTTA-A
1 AAATATTTAAATTTATA
* *
81734 AAATA-TAAAATTTATT
1 AAATATTTAAATTTATA
81750 AAATATTTAA
1 AAATATTTAA
81760 TCAAGTAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.38
16 10 0.48
17 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATTTAAATTTATA
Found at i:81909 original size:23 final size:23
Alignment explanation
Indices: 81866--81910 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
81856 AGTTTAAATA
* *
81866 TTTAATAAATTATTATATATTTT
1 TTTAAAAAATAATTATATATTTT
81889 TTTAAAAAATAATCTAT-TATTT
1 TTTAAAAAATAAT-TATATATTT
81911 CAGCCTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAAAAATAATTATATATTTT
Found at i:83969 original size:14 final size:14
Alignment explanation
Indices: 83950--83978 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
83940 GTCTTTGTTC
83950 ATTATTTTATGCAG
1 ATTATTTTATGCAG
83964 ATTATTTTATGCAG
1 ATTATTTTATGCAG
83978 A
1 A
83979 GATATAAGCA
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:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
ATTATTTTATGCAG
Found at i:86914 original size:86 final size:86
Alignment explanation
Indices: 86799--87067 Score: 317
Period size: 86 Copynumber: 3.1 Consensus size: 86
86789 TGGTAACAAA
** * * * ** *
86799 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATCTAATAAACTCCGCAATAGGTGTTGAT
1 AAACGCCGCAATAGGTATTGAGATTTAGCGGCGTTTTTCCCACAAACTCCGCAATAGGTGTTGAT
86864 ATTTAGCGGCGTTTTTTCAAC
66 ATTTAGCGGCGTTTTTTCAAC
* * * *
86885 AAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAG
1 AAACGCCGCAATAGGTATTGAGATTTAGCGGCGTTTTTCCCACAAACTCCGCAATAGGTGTTGAT
* *
86950 ATTTAGCGGCGTTTTTCCCAC
66 ATTTAGCGGCGTTTTTTCAAC
* * * * *
86971 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAACAT-CGCAAAAGAT-CTGG
1 AAACGCCGCAATAGGTATTGAGATTTAGCGGCGTTTTTCCCACAAAC-TCCGCAATAGGTGTTGA
* *
87034 TATATAGCGGCGTTTTTTAGAAC
65 TATTTAGCGGCGTTTTTT-CAAC
87057 AAACGCCGCAA
1 AAACGCCGCAA
87068 AAGATCATAT
Statistics
Matches: 155, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
85 17 0.11
86 138 0.89
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (86 bp):
AAACGCCGCAATAGGTATTGAGATTTAGCGGCGTTTTTCCCACAAACTCCGCAATAGGTGTTGAT
ATTTAGCGGCGTTTTTTCAAC
Found at i:87024 original size:43 final size:43
Alignment explanation
Indices: 86799--87017 Score: 303
Period size: 43 Copynumber: 5.1 Consensus size: 43
86789 TGGTAACAAA
*** * * * ** *
86799 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATCTAAT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
* * * *
86842 AAACTCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTCAAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
86885 AAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
86928 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
86971 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
87014 AAAC
1 AAAC
87018 ATCGCAAAAG
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 160 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
Found at i:87051 original size:43 final size:43
Alignment explanation
Indices: 86821--87073 Score: 186
Period size: 43 Copynumber: 5.9 Consensus size: 43
86811 AGGTAACGAT
* ** * * * * * *
86821 ATATAGCGGCGTTTATCTAATAAACTCCGCAATAGGTGTTGAT
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* * * * * * *
86864 ATTTAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTGTTGAG
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* * * * * *
86907 ATTTAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAG
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* * * *
86950 ATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTCTTGAG
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
* *
86993 ATTTAGCGGCGTTTTTCCCACAAACATCGCAAAAGATC-TG-G
1 ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
*** *
87034 TATATAGCGGCGTTTTTTAGAACAAACGCCGCAAAAGATC
1 -ATATAGCGGCG-TTTTTCCCACAAACACCGCAAAAGATC
87074 ATATCTATAG
Statistics
Matches: 186, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.01
42 12 0.06
43 173 0.93
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
ATATAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTTGAG
Found at i:87051 original size:129 final size:129
Alignment explanation
Indices: 86794--87067 Score: 291
Period size: 129 Copynumber: 2.1 Consensus size: 129
86784 GCGTTTGGTA
* * * * * *
86794 ACAAAAAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATCTAATAAACTCCGCAATAGGTG
1 ACAACAAACGCCGCAATAGGTAACGAGATATAGCGGCGTTTATCCAACAAACGCCGCAATAGGTC
* * * * * * *
86859 TTGATATTTAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTT
66 TTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAGATATAGCGGAGTTTTT
* * *** * * *
86923 CCCACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTC
1 ACAACAAACGCCGCAATAGGTAACGAGATATAGCGGCGTTTATCCAACAAACGCCGCAATAGGTC
* * *
86988 TTGAGATTTAGCGGCGTTTTTCCCACAAACATCGCAAAAGAT-CTG-GTATATAGCGGCGTTTTT
66 TTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAG-ATATAGCGGAG-TTTT
87051 T
129 T
*
87052 AGAACAAACGCCGCAA
1 ACAACAAACGCCGCAA
87068 AAGATCATAT
Statistics
Matches: 116, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
127 1 0.01
128 11 0.09
129 104 0.90
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (129 bp):
ACAACAAACGCCGCAATAGGTAACGAGATATAGCGGCGTTTATCCAACAAACGCCGCAATAGGTC
TTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAGATATAGCGGAGTTTTT
Found at i:88184 original size:36 final size:36
Alignment explanation
Indices: 88143--88258 Score: 205
Period size: 36 Copynumber: 3.2 Consensus size: 36
88133 GGAATGTATC
88143 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
1 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
88179 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
1 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
* * *
88215 TAAATTCCACTTGAACAGCAGCAGTAGAATGTTGAT
1 TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
88251 TAAATTCC
1 TAAATTCC
88259 CAACCGTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (36 bp):
TAAATTCCACTTGAACATCATCAGTAGAATGTTAAT
Found at i:91506 original size:138 final size:133
Alignment explanation
Indices: 91335--91613 Score: 416
Period size: 133 Copynumber: 2.1 Consensus size: 133
91325 GAAGAAGAAG
*
91335 AAAA-CCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAATAAAAAATGAATTCTACCTAGAGATC
1 AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAG-----AAAAAATGAATTCTACCCAGAGATC
*
91399 TAATTCACATAAAAGTAAACAAATTCACACCCCCAATTAGGCTAAGAACTAATAGAATGGACTTT
61 TAATTCACATAAAAGTAAACAAATTCACACCCCCAATTAGGCTAAGAACTAAAAGAATGGACTTT
* *
91464 TATAAAAC
126 CAGAAAAC
* * **
91472 AAAACCCAGAAATCATAAGGTAAAACAAGTTTCAGGGAAAATGAATTCTACCCAGAGATCTAATT
1 AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAATGAATTCTACCCAGAGATCTAATT
* *
91537 CACATAAAAGTAAACAAATTCACGCCCCCAATTAGGCTAAGAACTAAAAGAATGGACTTTCAGGA
66 CACATAAAAGTAAACAAATTCACACCCCCAATTAGGCTAAGAACTAAAAGAATGGACTTTCAGAA
91602 AAC
131 AAC
91605 AAAACCCAG
1 AAAACCCAG
91614 CAAGATGAAG
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
133 99 0.76
137 4 0.03
138 28 0.21
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (133 bp):
AAAACCCAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAATGAATTCTACCCAGAGATCTAATT
CACATAAAAGTAAACAAATTCACACCCCCAATTAGGCTAAGAACTAAAAGAATGGACTTTCAGAA
AAC
Found at i:92493 original size:165 final size:165
Alignment explanation
Indices: 92209--92600 Score: 492
Period size: 165 Copynumber: 2.4 Consensus size: 165
92199 CTTTAAACTT
* * *
92209 GCGGCGTTTTAAAAAACAAACGCCACTAAAGTACAAGTC--TAGCGGCATTTTTATAAAAACGCC
1 GCGGCGTTTT-AAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * *
92272 ACTAATATACGAGTCTATAGCGGCGTTTGTATAAAAACACCACTAATGTACGAGTCTATAGCGGT
65 ACTAATATACGACTCTATAGCGACGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGC
92337 GTTTGTATAAAAACGCCACTAAAGTACAAGC-CTATA
130 GTTTGTATAAAAACGCCACTAAAGTACAA-CTCTATA
* * *
92373 GCGGCGTTTGTAAACACAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAAAAACGCC
1 GCGGCGTTT-TAAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * *
92437 ACTAA-AGTACTACTCTATCGCGACGTTTTGTATAAAAATACCGCTAAAGT-CGAGTCTATAGCG
65 ACTAATA-TACGACTCTATAGCGACG-TTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCG
** *
92500 GCGTTTGTATAAAAACGCTGCTAAAGTACAACTCTATT
128 GCGTTTGTATAAAAACGCCACTAAAGTACAACTCTATA
* * * *
92538 GTGGCGTTTTATATAA-AAACGCCACTAAAGTACGATTCTATAACGGCGTTTGTATAAAAACGC
1 GCGGCGTTTTA-AAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGC
92601 TGCTAAAAGT
Statistics
Matches: 196, Mismatches: 24, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
163 4 0.02
164 46 0.23
165 125 0.64
166 21 0.11
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (165 bp):
GCGGCGTTTTAAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
CTAATATACGACTCTATAGCGACGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCG
TTTGTATAAAAACGCCACTAAAGTACAACTCTATA
Found at i:92607 original size:41 final size:41
Alignment explanation
Indices: 92226--92600 Score: 427
Period size: 41 Copynumber: 9.1 Consensus size: 41
92216 TTTAAAAAAC
* * *
92226 AAACGCCACTAAAGTACAAGTC--TAGCGGCATTTTTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
92265 AAACGCCACTAATA-TACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAA-AGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
92306 AAACACCACTAATGTACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
92347 AAACGCCACTAAAGTACAAGCCTATAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATA-A
* *
92389 CAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * * *
92430 AAACGCCACTAAAGTACTACTCTATCGCGACGTTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
** *
92472 AAATACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
** * * * * *
92512 AAACGCTGCTAAAGTACAACTCTATTGTGGCGTTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
* *
92554 AAACGCCACTAAAGTACGATTCTATAACGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
92595 AAACGC
1 AAACGC
92601 TGCTAAAAGT
Statistics
Matches: 280, Mismatches: 46, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
39 19 0.07
40 36 0.13
41 136 0.49
42 75 0.27
43 14 0.05
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:93024 original size:10 final size:10
Alignment explanation
Indices: 92987--93057 Score: 62
Period size: 10 Copynumber: 7.4 Consensus size: 10
92977 AATTTAAATG
92987 TATAT-ATAA
1 TATATAATAA
92996 TAT-TAATAA
1 TATATAATAA
*
93005 TA-ATTA-AA
1 TATATAATAA
93013 TATATAATAA
1 TATATAATAA
*
93023 TATATTATTAA
1 TATA-TAATAA
*
93034 TAAAT-ATATA
1 TATATAATA-A
93044 TATATAATAA
1 TATATAATAA
93054 TATA
1 TATA
93058 ATATTATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 5 0.10
9 16 0.33
10 17 0.35
11 11 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATAATAA
Found at i:93025 original size:8 final size:8
Alignment explanation
Indices: 92990--93060 Score: 53
Period size: 8 Copynumber: 9.0 Consensus size: 8
92980 TTAAATGTAT
92990 ATATAATA
1 ATATAATA
*
92998 TTAATAATA
1 AT-ATAATA
93007 AT-TAA-A
1 ATATAATA
93013 TATATAATA
1 -ATATAATA
*
93022 ATAT-ATT
1 ATATAATA
93029 AT-TAATA
1 ATATAATA
93036 A-ATATATA
1 ATATA-ATA
93044 TATATAATA
1 -ATATAATA
93053 ATATAATA
1 ATATAATA
93061 TTATTTTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
6 2 0.04
7 14 0.28
8 19 0.38
9 12 0.24
10 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATAATA
Found at i:93042 original size:17 final size:16
Alignment explanation
Indices: 92988--93065 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 16
92978 ATTTAAATGT
*
92988 ATATATAATATTAATA
1 ATATATATTATTAATA
* *
93004 ATA-AT-TAAATATATA
1 ATATATATTATTA-ATA
93019 ATAATATATTATTAATA
1 AT-ATATATTATTAATA
93036 A-ATATATATATATAATA
1 ATATATAT-TAT-TAATA
93053 ATATAATATTATT
1 ATAT-ATATTATT
93066 TTATATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
14 3 0.06
15 13 0.27
16 7 0.14
17 13 0.27
18 9 0.18
19 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATATTATTAATA
Found at i:93072 original size:31 final size:31
Alignment explanation
Indices: 92990--93063 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
92980 TTAAATGTAT
*
92990 ATATAATATTAAT-AATAATTAAATATATAATA
1 ATATAATATTAATAAAT-A-TATATATATAATA
*
93022 ATATATTATTAATAAATATATATATATAATA
1 ATATAATATTAATAAATATATATATATAATA
93053 ATATAATATTA
1 ATATAATATTA
93064 TTTTATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.58
32 13 0.34
33 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATAATATTAATAAATATATATATATAATA
Found at i:94706 original size:3 final size:3
Alignment explanation
Indices: 94688--94791 Score: 128
Period size: 3 Copynumber: 36.0 Consensus size: 3
94678 TATTTGTTTT
* * *
94688 TTA TTT TTA ATA TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
94736 TT- TTA -TA CTA TT- TTA TTTA TT- TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
94777 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
94792 CAAACAGGCC
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
2 10 0.11
3 75 0.85
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:96181 original size:26 final size:23
Alignment explanation
Indices: 96151--96205 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 23
96141 AGTTTTAATT
96151 TTATTT-ATTTTAGTTACTGTTTAAA
1 TTATTTAATTTTA--TA-TGTTTAAA
96176 TATATTTTAATTTTATATGTTTAAA
1 T-TA-TTTAATTTTATATGTTTAAA
96201 TTATT
1 TTATT
96206 ATTATTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 10 0.37
26 4 0.15
27 3 0.11
28 6 0.22
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
TTATTTAATTTTATATGTTTAAA
Found at i:96184 original size:37 final size:37
Alignment explanation
Indices: 96121--96191 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
96111 TAATTACAAG
* * *
96121 TTTTATTACTTTTTATATTTAGTTTTAATTTTATTTA
1 TTTTATTACTGTTTAAATATAGTTTTAATTTTATTTA
96158 TTTTAGTTACTGTTTAAATATA-TTTTAATTTTAT
1 TTTTA-TTACTGTTTAAATATAGTTTTAATTTTAT
96192 ATGTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (37 bp):
TTTTATTACTGTTTAAATATAGTTTTAATTTTATTTA
Found at i:96200 original size:25 final size:26
Alignment explanation
Indices: 96142--96220 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
96132 TTTATATTTA
*
96142 GTTTTAATT-TTATT-TATTTTAGTTACT
1 GTTTAAATTATTATTATATTTTA--TA-T
96169 GTTTAAATATATT-TTA-ATTTTATAT
1 GTTTAAAT-TATTATTATATTTTATAT
96194 GTTTAAATTATTATTATTATTTTATAT
1 GTTTAAATTATTATTA-TATTTTATAT
96221 ATATATATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
24 4 0.09
25 12 0.27
26 2 0.04
27 16 0.36
28 9 0.20
29 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.63
Consensus pattern (26 bp):
GTTTAAATTATTATTATATTTTATAT
Found at i:96362 original size:2 final size:2
Alignment explanation
Indices: 96350--96397 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
96340 TATTATGCTA
*
96350 AT AT CT 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
96392 AT AT AT
1 AT AT AT
96398 TAATCATGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97205 original size:29 final size:28
Alignment explanation
Indices: 97130--97217 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
97120 AAATTAAAAA
* * *
97130 TTCATATATTTA-ATTTATAATTCTTTCTT
1 TTCATATATTTATATATAT-ATT-ATTATT
* *
97159 TTCA-AAATTTTTATATATACTTATTATT
1 TTCATATATTTATATATATA-TTATTATT
97187 TTCATATATTTATATATATATATATTATT
1 TTCATATATTTATATATATAT-TATTATT
97216 TT
1 TT
97218 TTATTAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 15 0.31
29 33 0.69
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (28 bp):
TTCATATATTTATATATATATTATTATT
Found at i:107617 original size:15 final size:16
Alignment explanation
Indices: 107593--107643 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
107583 AAAAAAAGAA
107593 AAAAATAATGAAAATG
1 AAAAATAATGAAAATG
107609 AAAAA-AATGAAAATG
1 AAAAATAATGAAAATG
**
107624 AAAAATGAAAAAAAATG
1 AAAAAT-AATGAAAATG
107641 AAA
1 AAA
107644 TGAAAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 15 0.48
16 5 0.16
17 11 0.35
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (16 bp):
AAAAATAATGAAAATG
Found at i:107631 original size:22 final size:21
Alignment explanation
Indices: 107584--107650 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
107574 GAAGAAATAA
*
107584 AAAAAAGAAAAAAAT--AATG
1 AAAAATGAAAAAAATGAAATG
107603 -AAAATGAAAAAAATGAAAATG
1 AAAAATGAAAAAAATG-AAATG
107624 AAAAATGAAAAAAAATGAAATG
1 AAAAATG-AAAAAAATGAAATG
107646 AAAAA
1 AAAAA
107651 AAGAGAGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 13 0.31
21 4 0.10
22 16 0.38
23 9 0.21
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAATGAAAAAAATGAAATG
Found at i:108340 original size:20 final size:20
Alignment explanation
Indices: 108315--108352 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108305 TTTTACGAAT
108315 CAGTAATTATGGCGCTGAAC
1 CAGTAATTATGGCGCTGAAC
*
108335 CAGTAATTATGGTGCTGA
1 CAGTAATTATGGCGCTGA
108353 CCCAATGTTG
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:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (20 bp):
CAGTAATTATGGCGCTGAAC
Found at i:108742 original size:20 final size:22
Alignment explanation
Indices: 108697--108759 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
108687 ACATCTACAT
108697 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
108719 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
108741 TTTTCAAAGAAGAAAGATT
1 TCTTCAAAGATGATAGATT
108760 TATTGGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:109202 original size:122 final size:122
Alignment explanation
Indices: 109046--109377 Score: 526
Period size: 122 Copynumber: 2.7 Consensus size: 122
109036 TCACTCGATG
* *
109046 CATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCAT
1 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
* *
109111 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAAGAGATAGATCAA
66 AATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAGAAAGAGATAAATCAA
109168 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
1 CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
* *
109233 AATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAGAAGGAGATAAATCAG
66 AATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAGAAAGAGATAAATCAA
* * * * *
109290 CATCAACATTTCTA-A-AACTGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAACAAGTTC
1 CATCAACTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTC
109352 ATAATGAGAAGAACTTGTTCAACCTT
64 ATAATGAGAAGAACTTGTTCAACCTT
109378 GTCTTAATGC
Statistics
Matches: 197, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
120 2 0.01
121 64 0.32
122 131 0.66
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (122 bp):
CATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAGAAAGAGATAAATCAA
Found at i:109250 original size:20 final size:20
Alignment explanation
Indices: 109188--109251 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
109178 TCCAGAGAAA
109188 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
109208 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
109227 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
109247 GTTCA
1 GTTCA
109252 ACCTTTGCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:109714 original size:3 final size:3
Alignment explanation
Indices: 109696--109799 Score: 119
Period size: 3 Copynumber: 36.0 Consensus size: 3
109686 CATTTGTTTT
* * * *
109696 TTA TTT TTA ATA TTA TTA TTA ATA TTA TTA TTA TTA TT- TTA TT- CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
109742 TT- TTA TTTA TT- TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA ATA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109785 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
109800 CAAACAGGCC
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
2 9 0.11
3 73 0.86
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:109750 original size:14 final size:15
Alignment explanation
Indices: 109696--109797 Score: 97
Period size: 14 Copynumber: 6.7 Consensus size: 15
109686 CATTTGTTTT
109696 TTATTT-TTAATATTA
1 TTATTTATT-ATATTA
109711 TTATTAATATTATTATTA
1 TTATT--TATTA-TATTA
*
109729 TTATTTTATTCTATT-
1 TTA-TTTATTATATTA
*
109744 TTATTTATTTTATTA
1 TTATTTATTATATTA
109759 TTA-TTATTATATTA
1 TTATTTATTATATTA
109773 TTA-TTATTAATATTA
1 TTATTTATT-ATATTA
109788 TTA-TTATTAT
1 TTATTTATTAT
109798 TACAAACAGG
Statistics
Matches: 77, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
14 30 0.39
15 25 0.32
16 4 0.05
17 6 0.08
18 10 0.13
19 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTATTATATTA
Found at i:110296 original size:13 final size:13
Alignment explanation
Indices: 110274--110304 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
110264 ACAACCATTC
*
110274 GAAAAGAAAAAAA
1 GAAAAAAAAAAAA
110287 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
110300 GAAAA
1 GAAAA
110305 CACTTACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:110494 original size:14 final size:14
Alignment explanation
Indices: 110472--110502 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110462 TAGCCATTCG
*
110472 AAAAGAAAAAAAGA
1 AAAAAAAAAAAAGA
110486 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
110500 AAA
1 AAA
110503 CACTTACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:111197 original size:26 final size:23
Alignment explanation
Indices: 111167--111222 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
111157 AGTTTTAATT
111167 TTATTT-ATTTTAGTTACTGTTTAAA
1 TTATTTAATTTTA--TA-TGTTTAAA
111192 TATATTTTAATTTTATATGTTTAAA
1 T-TA-TTTAATTTTATATGTTTAAA
111217 TTATTT
1 TTATTT
111223 TAAATATCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
23 3 0.11
24 2 0.07
25 10 0.36
26 4 0.14
27 3 0.11
28 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
TTATTTAATTTTATATGTTTAAA
Found at i:111200 original size:37 final size:37
Alignment explanation
Indices: 111137--111207 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
111127 TAATTACAAG
* * *
111137 TTTTATTACTTTTTATATTTAGTTTTAATTTTATTTA
1 TTTTATTACTGTTTAAATATAGTTTTAATTTTATTTA
111174 TTTTAGTTACTGTTTAAATATA-TTTTAATTTTAT
1 TTTTA-TTACTGTTTAAATATAGTTTTAATTTTAT
111208 ATGTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (37 bp):
TTTTATTACTGTTTAAATATAGTTTTAATTTTATTTA
Found at i:113595 original size:12 final size:12
Alignment explanation
Indices: 113578--113709 Score: 78
Period size: 12 Copynumber: 10.6 Consensus size: 12
113568 TGTTTCTTTG
113578 ATTTTTTATTTT
1 ATTTTTTATTTT
113590 ATTTTTT-TTATT
1 ATTTTTTATT-TT
113602 ATTATTTTATTTT
1 ATT-TTTTATTTT
*
113615 -TATGTTTA-TTT
1 AT-TTTTTATTTT
113626 ATTTATTTATTTAT
1 ATTT-TTTATTT-T
113640 AGTTTTATTTATTTT
1 A--TTT-TTTATTTT
*
113655 ATTTGTATATTTT
1 ATTT-TTTATTTT
*
113668 ATTTATTA--TT
1 ATTTTTTATTTT
**
113678 ATTTTTTATCTAAC
1 ATTTTTTAT-T-TT
113692 ATTTTTTATTTT
1 ATTTTTTATTTT
113704 -TTTTTT
1 ATTTTTT
113710 GAGAAATTTC
Statistics
Matches: 95, Mismatches: 11, Indels: 29
0.70 0.08 0.21
Matches are distributed among these distances:
10 9 0.09
11 12 0.13
12 24 0.25
13 24 0.25
14 13 0.14
15 2 0.02
16 11 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:113608 original size:20 final size:23
Alignment explanation
Indices: 113578--113686 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 23
113568 TGTTTCTTTG
*
113578 ATTTTTTATTTTATTTT-T-TTT
1 ATTTATTATTTTATTTTATATTT
*
113599 A-TTATTATTTTATTTTTATGTTT
1 ATTTATTATTTTA-TTTTATATTT
*
113622 ATTTATT-TATTTA-TTTATA-GT
1 ATTTATTAT-TTTATTTTATATTT
113643 -TTTATTTATTTTATTTGTATATTTT
1 ATTTA-TTATTTTATTT-TATA-TTT
113668 ATTTATTATTATT-TTTTAT
1 ATTTATTATT-TTATTTTAT
113687 CTAACATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 23
0.72 0.04 0.23
Matches are distributed among these distances:
20 14 0.20
21 12 0.17
22 9 0.13
23 9 0.13
24 12 0.17
25 9 0.13
26 6 0.08
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (23 bp):
ATTTATTATTTTATTTTATATTT
Found at i:113614 original size:17 final size:16
Alignment explanation
Indices: 113580--113682 Score: 87
Period size: 16 Copynumber: 6.6 Consensus size: 16
113570 TTTCTTTGAT
113580 TTTTTATTTTA-TTT-
1 TTTTTATTTTATTTTA
113594 TTTTTATTATTATTTTA
1 TTTTTATT-TTATTTTA
113611 TTTTTATGTTTA-TTTA
1 TTTTTAT-TTTATTTTA
113627 --TTTA-TTTATTTATA
1 TTTTTATTTTATTT-TA
*
113641 GTTTTA-TTTATTTTA
1 TTTTTATTTTATTTTA
113656 TTTGTATATTTTA-TTTA
1 TTT-T-TATTTTATTTTA
*
113673 TTATTATTTT
1 TTTTTATTTT
113683 TTATCTAACA
Statistics
Matches: 76, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
12 4 0.05
13 2 0.03
14 14 0.18
15 13 0.17
16 20 0.26
17 18 0.24
18 5 0.07
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:113628 original size:4 final size:4
Alignment explanation
Indices: 113619--113686 Score: 54
Period size: 4 Copynumber: 17.2 Consensus size: 4
113609 TATTTTTATG
* * *
113619 TTTA TTTA TTTA TTTA TTTA TAGT- TTTA TTTA TTTTA TTTG TATA TTTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA TTTA TTTA -TTTA
113669 TTTA -TTA -TTA TTT- TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
113687 CTAACATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 10 0.19
4 34 0.65
5 8 0.15
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:113684 original size:17 final size:17
Alignment explanation
Indices: 113578--113686 Score: 72
Period size: 17 Copynumber: 6.5 Consensus size: 17
113568 TGTTTCTTTG
113578 ATTTTTTA-TT-TTATT
1 ATTTTTTATTTATTATT
113593 -TTTTTTA-TTATTATT
1 ATTTTTTATTTATTATT
* *
113608 TTATTTTTATGT-TTATTT
1 AT-TTTTTATTTATTA-TT
113626 ATTTATTTATTTA-TAGTT
1 ATTT-TTTATTTATTA-TT
*
113644 -TTATTTATTTTATT-TGT
1 ATTTTTTA-TTTATTAT-T
*
113661 ATATTTTATTTATTATT
1 ATTTTTTATTTATTATT
113678 ATTTTTTAT
1 ATTTTTTAT
113687 CTAACATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
14 9 0.12
15 5 0.07
16 6 0.08
17 33 0.45
18 21 0.28
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
ATTTTTTATTTATTATT
Found at i:113767 original size:6 final size:7
Alignment explanation
Indices: 113752--113782 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
113742 TGAATCCGGT
113752 TTTTTAA
1 TTTTTAA
113759 TTTTT-A
1 TTTTTAA
113765 TTTTTAA
1 TTTTTAA
113772 TTTTTAA
1 TTTTTAA
113779 TTTT
1 TTTT
113783 CGCGATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:113770 original size:13 final size:14
Alignment explanation
Indices: 113752--113782 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
113742 TGAATCCGGT
113752 TTTTTAATTTTT-A
1 TTTTTAATTTTTAA
113765 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
113779 TTTT
1 TTTT
113783 CGCGATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:117785 original size:110 final size:109
Alignment explanation
Indices: 117403--118206 Score: 1005
Period size: 110 Copynumber: 7.5 Consensus size: 109
117393 GCTTCCCAGT
*
117403 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
* * * *
117468 CAACGAAGGGGCGACTGGTTGTCAACAAATAACTTTCCAG-T--
66 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTCA
* * * * * *
117509 TTCAGAGCCGATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAATACAAGTTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
* * *
117574 CAACGAAGGGGCGACTGGTTGTCAACAAACAAC-TTCCAAG-T--
66 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTC-AGTTCA
* * * **
117615 TTCAGAATCAATTTCAACTTCACAGCGAAGTATATTGGACTCGAGACAATACAATATCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
* * *
117680 CATCGAAGGGGCGACTGATTGTAAACAAACAAATTTTCAGTTTCA
66 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAG-TTCA
* ** *
117725 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCGAGATGACACATGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
117790 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTCA
66 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTCA
* *
117834 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
* ** * * *
117899 GATTGAAGGGGCGATTTACTGTCAACAAACAACTTTTCAGTTTCA
66 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAG-TTCA
*
117944 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
* *
118009 CAGCGAAGGGCCGACTGATTGTCAACAAATAACTTTTCAGTTTCA
66 CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAG-TTCA
* * * * *
118054 TTCAGAGTCAATTTGAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTTA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
**
118119 CAGCGAAGGGGCGGTTGGA-TGTCAACAAAC-A------AG-T--
66 CAGCGAAGGGGCGACT-GATTGTCAACAAACAACTTTTCAGTTCA
* * * *
118153 TTCAGAGCCAATTTCAACTTCACAGCGAAGTATATTGGACTCGAAACAATACAA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
118207 CTTACTTGGA
Statistics
Matches: 619, Mismatches: 71, Indels: 23
0.87 0.10 0.03
Matches are distributed among these distances:
99 47 0.08
101 1 0.00
103 2 0.00
105 4 0.01
106 183 0.30
107 3 0.00
108 1 0.00
109 98 0.16
110 278 0.45
111 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (109 bp):
TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
CAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTCA
Found at i:117947 original size:219 final size:219
Alignment explanation
Indices: 117403--118150 Score: 1028
Period size: 219 Copynumber: 3.4 Consensus size: 219
117393 GCTTCCCAGT
* *
117403 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
* * * * * *
117468 CAACGAAGGGGCGACTGGTTGTCAACAAATAACTTTCCAG--T--TTCAGAGCCGATTTCAACTT
66 CATCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTT
* * * * *
117529 CACAGCGAATGATATTGGACTCAAGACAATACAAGTTCAACTTCACAACGAAGGGGCGACTGGTT
131 CACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGATT
*
117594 GTCAACAAACAAC-TTCCAAG-T--
196 GTCAACAAACAACTTTTC-AGTTCA
* * * * **
117615 TTCAGAATCAATTTCAACTTCACAGCGAAGTATATTGGACTCGAGACAATACAATATCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
* *
117680 CATCGAAGGGGCGACTGATTGTAAACAAACAAATTTTCAGTTTCATTCAGAGTCAATTTCAACTT
66 CATCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTT
* * ** *
117745 CACAGCGAAGGATATTGTACTCGAGATGACACATGCTCAACTTCACAGCGAAGGGGCGACTGATT
131 CACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGATT
117810 GTCAACAAACAACTTTTCAGTTCA
196 GTCAACAAACAACTTTTCAGTTCA
*
117834 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
* * * * *
117899 GATTGAAGGGGCGATTTACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTT
66 CATCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTT
*
117964 CACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGCCGACTGATT
131 CACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGATT
*
118029 GTCAACAAATAACTTTTCAGTTTCA
196 GTCAACAAACAACTTTTCAG-TTCA
* * * *
118054 TTCAGAGTCAATTTGAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTTA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
* **
118119 CAGCGAAGGGGCGGTTGGA-TGTCAACAAACAA
66 CATCGAAGGGGCGACT-GATTGTCAACAAACAA
118151 GTTTCAGAGC
Statistics
Matches: 470, Mismatches: 56, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
212 93 0.20
214 1 0.00
216 88 0.19
217 4 0.01
219 194 0.41
220 89 0.19
221 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (219 bp):
TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCA
CATCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTT
CACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGATT
GTCAACAAACAACTTTTCAGTTCA
Found at i:118669 original size:120 final size:120
Alignment explanation
Indices: 118440--118671 Score: 356
Period size: 120 Copynumber: 1.9 Consensus size: 120
118430 ACAACTTACA
* *
118440 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
118505 CCACGGTTTCAACTTCACGACGAAGGGAATTGTGCTCACCAGCAACAATACAAGC
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTACCCACCAGCAACAATACAAGC
* *
118560 TTGGATTTTAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * *
118625 CCGCTGTTTCAACTTCATGACGAATGGAATCGTACCCACTAGCAACA
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTACCCACCAGCAACA
118672 TTCATCTTCA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (120 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGGTTTCAACTTCACGACGAAGGGAATCGTACCCACCAGCAACAATACAAGC
Found at i:118799 original size:21 final size:21
Alignment explanation
Indices: 118773--118844 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
118763 AACAAAGTTG
118773 TCTCTCTTGAAACAAATTTTT
1 TCTCTCTTGAAACAAATTTTT
*
118794 TCTCTCTTGAGAC-AA---TT
1 TCTCTCTTGAAACAAATTTTT
*
118811 TC-C-CTTGAAACAAATTTTG
1 TCTCTCTTGAAACAAATTTTT
*
118830 TCTCTCTTGAGACAA
1 TCTCTCTTGAAACAA
118845 TTTCCCTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 7 0.17
16 3 0.07
17 4 0.10
19 3 0.07
20 3 0.07
21 21 0.51
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTCTCTTGAAACAAATTTTT
Found at i:118818 original size:36 final size:36
Alignment explanation
Indices: 118778--118860 Score: 157
Period size: 36 Copynumber: 2.3 Consensus size: 36
118768 AGTTGTCTCT
*
118778 CTTGAAACAAATTTTTTCTCTCTTGAGACAATTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
118814 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
118850 CTTGAAACAAA
1 CTTGAAACAAA
118861 ATCTTTGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
Found at i:118823 original size:15 final size:15
Alignment explanation
Indices: 118799--118859 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
118789 TTTTTTCTCT
*
118799 CTTGAGACAATTTCC
1 CTTGAAACAATTTCC
118814 CTTGAAACAAATTTTGTCTC
1 CTTGAAAC-AA--TT-TC-C
*
118834 TCTTGAGACAATTTCC
1 -CTTGAAACAATTTCC
118850 CTTGAAACAA
1 CTTGAAACAA
118860 AATCTTTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
15 16 0.43
16 3 0.08
17 2 0.05
18 4 0.11
19 2 0.05
20 3 0.08
21 7 0.19
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (15 bp):
CTTGAAACAATTTCC
Found at i:119004 original size:73 final size:73
Alignment explanation
Indices: 118881--119033 Score: 207
Period size: 73 Copynumber: 2.1 Consensus size: 73
118871 ATGTTTTACA
* * ** * * *
118881 TTAAACAAATTTCGTCTCCCTTGAGATAGTTTCTTTTGGAACTAATTTTTGTCTCTCTTGAGACA
1 TTAAACAAATTTCGTCTCCCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
118946 ATTTCTCT
66 ATTTCTCT
* * *
118954 TTAAATAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 TTAAACAAATTTCGTCTCCCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
119019 ATTTCTCT
66 ATTTCTCT
*
119027 TGAAACA
1 TTAAACA
119034 CACAAAAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (73 bp):
TTAAACAAATTTCGTCTCCCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
ATTTCTCT
Found at i:119031 original size:37 final size:36
Alignment explanation
Indices: 118883--119033 Score: 194
Period size: 37 Copynumber: 4.1 Consensus size: 36
118873 GTTTTACATT
* * * * *
118883 AAACAAATTTCGTCTCCCTTGAGATAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTG
* * *
118919 GAACTAATTTTTGTCTCTCTTGAGACAATTTCTCTTT
1 AAAC-AAATTTTGTCTCTCTTGAGACAATTTCTCTTG
* *
118956 AAATAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTG
118992 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAATTTCTCTTG
119029 AAACA
1 AAACA
119034 CACAAAAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 38 0.39
37 60 0.61
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTG
Found at i:119228 original size:84 final size:84
Alignment explanation
Indices: 119075--119257 Score: 249
Period size: 84 Copynumber: 2.2 Consensus size: 84
119065 GAAACACCAA
* * * *
119075 ACCTTCGAGTTCGAGTACACTCAACTTCAAGGCACATCATTTGCAACATAGCCCAAGGCAAGAAG
1 ACCTTCGAGTTCGACTACACTCAACTCCAAGACACATCATTTGCAACATAGCCCAAGGCAAGAAA
*
119140 GGCTATTTGCCAACCAAAG
66 GGCTATCTGCCAACCAAAG
* * ** * *
119159 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAACATAGCTTAAGTCGAGAAA
1 ACCTTCGAGTTCGACTACACTCAACTCCAAGACACATCATTTGCAACATAGCCCAAGGCAAGAAA
119224 GGCTATCTGCCAACCAAAG
66 GGCTATCTGCCAACCAAAG
*
119243 ACCTGACGAGTTCGA
1 ACCT-TCGAGTTCGA
119258 TTTCATTCAG
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 77 0.90
85 9 0.10
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (84 bp):
ACCTTCGAGTTCGACTACACTCAACTCCAAGACACATCATTTGCAACATAGCCCAAGGCAAGAAA
GGCTATCTGCCAACCAAAG
Found at i:119844 original size:21 final size:21
Alignment explanation
Indices: 119818--119865 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
119808 GCAAAAGGAA
*
119818 AAGGCATCCAAACTGACGACG
1 AAGGCATCCAAACTAACGACG
*
119839 AAGGCATCCAAACTAACGATG
1 AAGGCATCCAAACTAACGACG
119860 AAGGCA
1 AAGGCA
119866 AAGAAGAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.23, T:0.10
Consensus pattern (21 bp):
AAGGCATCCAAACTAACGACG
Found at i:120740 original size:12 final size:12
Alignment explanation
Indices: 120723--120826 Score: 67
Period size: 12 Copynumber: 8.8 Consensus size: 12
120713 TGTTTCTTTG
120723 ATTTTTTATTTT
1 ATTTTTTATTTT
*
120735 ATTTTTT-TATT
1 ATTTTTTATTTT
120746 ATTATTTTATTTT
1 ATT-TTTTATTTT
*
120759 -TATGTTTA-TTT
1 AT-TTTTTATTTT
*
120770 ATTTATTTATAGTT
1 ATTT-TTTAT-TTT
*
120784 -TTATTTATTTT
1 ATTTTTTATTTT
*
120795 ATTTGTATATTTT
1 ATTT-TTTATTTT
*
120808 ATTTATTA--TT
1 ATTTTTTATTTT
120818 ATTTTTTAT
1 ATTTTTTAT
120827 CTAACATTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
10 9 0.13
11 12 0.17
12 30 0.43
13 17 0.24
14 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:120744 original size:8 final size:8
Alignment explanation
Indices: 120724--120814 Score: 58
Period size: 8 Copynumber: 11.1 Consensus size: 8
120714 GTTTCTTTGA
120724 TTTTTTAT
1 TTTTTTAT
120732 TTTATTT-T
1 TTT-TTTAT
*
120740 TTTATTAT
1 TTTTTTAT
*
120748 TATTTTAT
1 TTTTTTAT
* *
120756 TTTTATGT
1 TTTTTTAT
*
120764 TTATTTAT
1 TTTTTTAT
*
120772 TTATTTAT
1 TTTTTTAT
**
120780 AGTTTTAT
1 TTTTTTAT
120788 TTATTTTAT
1 TT-TTTTAT
* *
120797 TTGTATAT
1 TTTTTTAT
120805 TTTATTTAT
1 TTT-TTTAT
120814 T
1 T
120815 ATTATTTTTT
Statistics
Matches: 61, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
7 2 0.03
8 43 0.70
9 16 0.26
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTAT
Found at i:120753 original size:25 final size:25
Alignment explanation
Indices: 120725--120823 Score: 78
Period size: 26 Copynumber: 3.8 Consensus size: 25
120715 TTTCTTTGAT
120725 TTTTTA-TTTTATTTTTTTATTATTA
1 TTTTTAGTTTTATTTTTTTATT-TTA
*
120750 -TTTTATTTTTATGTTTATTTA-TTTA
1 TTTTTAGTTTTAT-TTT-TTTATTTTA
*
120775 TTTATAGTTTTATTTATTTTATTTGTA
1 TTTTTAGTTTTATTT-TTTTATTT-TA
*
120802 TATTTTATTTATTATTATTTTT
1 T-TTTTAGTT-TTATT-TTTTT
120824 TATCTAACAT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
24 5 0.08
25 15 0.25
26 17 0.28
27 7 0.12
28 6 0.10
29 9 0.15
30 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTTAGTTTTATTTTTTTATTTTA
Found at i:120757 original size:24 final size:24
Alignment explanation
Indices: 120726--120798 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 24
120716 TTCTTTGATT
120726 TTTTA-TTTTATTTTTTTATTATTA
1 TTTTAGTTTTATTTTTTTATT-TTA
*
120750 TTTTATTTTTATGTTTATTTA-TTTA
1 TTTTAGTTTTAT-TTT-TTTATTTTA
120775 TTTATAGTTTTATTTATTTTATTT
1 TTT-TAGTTTTATTT-TTTTATTT
120799 GTATATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
24 5 0.12
25 18 0.43
26 15 0.36
27 4 0.10
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTTAGTTTTATTTTTTTATTTTA
Found at i:120760 original size:17 final size:17
Alignment explanation
Indices: 120728--120826 Score: 61
Period size: 17 Copynumber: 5.9 Consensus size: 17
120718 CTTTGATTTT
120728 TTATTTTATTTTTTTATTA
1 TTATTTTA--TTTTTATTA
120747 TTATTTTATTTTTATGT-
1 TTATTTTATTTTTAT-TA
*
120764 TTA-TTTATTTAT-TTA
1 TTATTTTATTTTTATTA
120779 -TAGTTTTA--TTTATT-
1 TTA-TTTTATTTTTATTA
120793 TTATTTGTATATTTTATTTA
1 TTATTT-TAT-TTTTA-TTA
*
120813 TTATTAT-TTTTTAT
1 TTATTTTATTTTTAT
120827 CTAACATTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 27
0.68 0.03 0.28
Matches are distributed among these distances:
14 8 0.12
15 7 0.11
16 13 0.20
17 15 0.23
18 6 0.09
19 11 0.17
20 5 0.08
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTATTTTATTTTTATTA
Found at i:120767 original size:20 final size:20
Alignment explanation
Indices: 120727--120823 Score: 110
Period size: 20 Copynumber: 4.7 Consensus size: 20
120717 TCTTTGATTT
120727 TTTATTTTATTTTT-TTATTA
1 TTTATTTTATTTTTATT-TTA
120747 -TTATTTTATTTTTATGTTTA
1 TTTATTTTATTTTTAT-TTTA
*
120767 TTTA-TTTATTTATAGTTTTA
1 TTTATTTTATTTTTA-TTTTA
120787 TTTATTTTATTTGTATATTTTA
1 TTTATTTTATTT-T-TATTTTA
120809 TTTATTATTATTTTT
1 TTTATT-TTATTTTT
120824 TATCTAACAT
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
19 13 0.19
20 21 0.31
21 13 0.19
22 12 0.18
23 8 0.12
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTATTTTATTTTTATTTTA
Found at i:120904 original size:6 final size:7
Alignment explanation
Indices: 120889--120919 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
120879 TGAATCCGGT
120889 TTTTTAA
1 TTTTTAA
120896 TTTTT-A
1 TTTTTAA
120902 TTTTTAA
1 TTTTTAA
120909 TTTTTAA
1 TTTTTAA
120916 TTTT
1 TTTT
120920 CGCGATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:120907 original size:13 final size:14
Alignment explanation
Indices: 120889--120919 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
120879 TGAATCCGGT
120889 TTTTTAATTTTT-A
1 TTTTTAATTTTTAA
120902 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
120916 TTTT
1 TTTT
120920 CGCGATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:121995 original size:43 final size:42
Alignment explanation
Indices: 121943--122109 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 42
121933 TTTGTATTTT
* *
121943 CAAACGCCGCAATAGCTATGTTATTTAGCGGCGTTTTTAGGCA
1 CAAACGCCGCAATAG-TTTGTTATTTAGCGGCATTTTTAGGCA
* * * ** *
121986 CAAATGCCGCAAAAAGTTTGTTATTTAGCAGTGTTTTTAAGCA
1 CAAACGCCGC-AATAGTTTGTTATTTAGCGGCATTTTTAGGCA
*
122029 CAAACGCCACAATAGGTTTGTTATTTAGCGGCATTTTTAGGCA
1 CAAACGCCGCAATA-GTTTGTTATTTAGCGGCATTTTTAGGCA
*
122072 CAAATGCCGCAACATA-TTTGTTATTTAGCGGCATTTTT
1 CAAACGCCGC-A-ATAGTTTGTTATTTAGCGGCATTTTT
122110 CCTGAAAGCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.03
43 94 0.90
44 5 0.05
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (42 bp):
CAAACGCCGCAATAGTTTGTTATTTAGCGGCATTTTTAGGCA
Found at i:122042 original size:86 final size:86
Alignment explanation
Indices: 121943--122100 Score: 255
Period size: 86 Copynumber: 1.8 Consensus size: 86
121933 TTTGTATTTT
* *
121943 CAAACGCCGCAATAGCTATGTTATTTAGCGGCGTTTTTAGGCACAAATGCCGCAA-AAAGTTTGT
1 CAAACGCCACAATAGCTATGTTATTTAGCGGCATTTTTAGGCACAAATGCCGCAACAAA-TTTGT
122007 TATTTAGCAGTGTTTTTAAGCA
65 TATTTAGCAGTGTTTTTAAGCA
* * *
122029 CAAACGCCACAATAGGTTTGTTATTTAGCGGCATTTTTAGGCACAAATGCCGCAACATATTTGTT
1 CAAACGCCACAATAGCTATGTTATTTAGCGGCATTTTTAGGCACAAATGCCGCAACAAATTTGTT
122094 ATTTAGC
66 ATTTAGC
122101 GGCATTTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
86 64 0.97
87 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (86 bp):
CAAACGCCACAATAGCTATGTTATTTAGCGGCATTTTTAGGCACAAATGCCGCAACAAATTTGTT
ATTTAGCAGTGTTTTTAAGCA
Found at i:122298 original size:41 final size:41
Alignment explanation
Indices: 122253--122333 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
122243 ATCACCTTAA
*
122253 ATTTAATTACGATTCGAATTAAGTAATAATAAATAAAAACT
1 ATTTAATTACGATTCGAATTAAGTAACAATAAATAAAAACT
*
122294 ATTTAATTACGATTCGAATTAAGTAACAATACATAAAAAC
1 ATTTAATTACGATTCGAATTAAGTAACAATAAATAAAAAC
122334 ATAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (41 bp):
ATTTAATTACGATTCGAATTAAGTAACAATAAATAAAAACT
Found at i:122511 original size:19 final size:19
Alignment explanation
Indices: 122487--122534 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
122477 AAGTAGACAT
122487 TCTTCTGCCAAGAACACAC
1 TCTTCTGCCAAGAACACAC
122506 TCTTCTGCCAAGAACACAC
1 TCTTCTGCCAAGAACACAC
*
122525 TCTTCAGCCA
1 TCTTCTGCCA
122535 GCATAGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.38, G:0.10, T:0.23
Consensus pattern (19 bp):
TCTTCTGCCAAGAACACAC
Found at i:125583 original size:41 final size:41
Alignment explanation
Indices: 125517--125614 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
125507 TTTTAAACAC
* * *
125517 AAACACCACTAAAGTATAAGTCTATAGTGGCATTTGTATAA
1 AAACGCCACTAAAGTATAAGTCTATAGAGGCATTTATATAA
* * * * **
125558 AACCGCCATTAAAGTGTGAGTCTATAGAGGTGTTTATATAA
1 AAACGCCACTAAAGTATAAGTCTATAGAGGCATTTATATAA
125599 AAACGCCACTAAAGTA
1 AAACGCCACTAAAGTA
125615 CTATTCTGTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTATAAGTCTATAGAGGCATTTATATAA
Found at i:139343 original size:41 final size:41
Alignment explanation
Indices: 139298--139474 Score: 116
Period size: 41 Copynumber: 4.3 Consensus size: 41
139288 TTCAGAAAAA
** * *
139298 AATATATTTTATAATATATGCTATATATAT-TTTTAAAACAT
1 AATATATACTATAATATAT-ATATATATATATATTAAAACAT
* *
139339 AATATATACTATAATATATATATATATATATATTCAAATAT
1 AATATATACTATAATATATATATATATATATATTAAAACAT
* * * * *
139380 AATATATA-TTTTATATA-ATATAACATATATTTTAAAACCT
1 AATATATACTATAATATATATAT-ATATATATATTAAAACAT
* * * *
139420 ACATATATATTTTCAA-ATATA-ATATAT-TCTATATAATACAAT
1 A-ATATATACTAT-AATATATATATATATATATAT-TAAAAC-AT
139462 AA-ATATACTATAA
1 AATATATACTATAA
139475 AACAATAAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
39 6 0.06
40 40 0.37
41 49 0.46
42 10 0.09
43 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.44
Consensus pattern (41 bp):
AATATATACTATAATATATATATATATATATATTAAAACAT
Found at i:139354 original size:12 final size:11
Alignment explanation
Indices: 139337--139409 Score: 59
Period size: 10 Copynumber: 7.0 Consensus size: 11
139327 TTTTTAAAAC
139337 ATAATATATACT
1 ATAATATATA-T
139349 ATAATATATAT
1 ATAATATATAT
139360 AT-ATATATAT
1 ATAATATATAT
139370 AT--TCA-A-AT
1 ATAAT-ATATAT
139378 ATAATATATAT
1 ATAATATATAT
* *
139389 TTTATATA-AT
1 ATAATATATAT
*
139399 ATAACATATAT
1 ATAATATATAT
139410 TTTAAAACCT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 20 0.40
11 13 0.26
12 10 0.20
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATATAT
Found at i:139359 original size:14 final size:13
Alignment explanation
Indices: 139340--139409 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 13
139330 TTAAAACATA
139340 ATATATACTATAAT
1 ATATATA-TATAAT
139354 ATATATATAT-AT
1 ATATATATATAAT
139366 ATATAT-TCA-AAT
1 ATATATAT-ATAAT
*
139378 ATA-ATATATATT
1 ATATATATATAAT
* *
139390 TTATATAATATAAC
1 ATATAT-ATATAAT
139404 ATATAT
1 ATATAT
139410 TTTAAAACCT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 4 0.09
12 19 0.42
13 5 0.11
14 17 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:139359 original size:16 final size:15
Alignment explanation
Indices: 139340--139401 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
139330 TTAAAACATA
139340 ATATATACTATAATAT
1 ATATATA-TATAATAT
139356 ATATATATAT-ATAT
1 ATATATATATAATAT
*
139370 AT-TCAAATATAATAT
1 ATAT-ATATATAATAT
*
139385 ATATTTTATATAATAT
1 ATA-TATATATAATAT
139401 A
1 A
139402 ACATATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.03
14 11 0.28
15 9 0.23
16 17 0.44
17 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATAATAT
Found at i:139409 original size:2 final size:2
Alignment explanation
Indices: 139340--139401 Score: 53
Period size: 2 Copynumber: 32.5 Consensus size: 2
139330 TTAAAACATA
*
139340 AT AT AT ACT AT A- AT AT AT AT AT AT AT AT AT AT -T CAA AT AT A-
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
*
139381 AT AT AT AT -T TT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
139402 ACATATATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
1 5 0.10
2 43 0.86
3 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:139468 original size:60 final size:60
Alignment explanation
Indices: 139362--139477 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 60
139352 ATATATATAT
* * *
139362 ATATATATATTCAAATATAATATATATTTTATATAATATAACATATATTTTAAAACCTAC
1 ATATATATATTCAAATATAATATATATTATATATAATATAACATATACTATAAAACCTAC
*
139422 ATATATATTTTCAAATATAATATAT-TCTATATAATACA-ATAA-ATATACTATAAAAC
1 ATATATATATTCAAATATAATATATAT-TATAT-ATA-ATATAACATATACTATAAAAC
139478 AATAAAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 1 0.02
60 40 0.82
61 7 0.14
62 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (60 bp):
ATATATATATTCAAATATAATATATATTATATATAATATAACATATACTATAAAACCTAC
Found at i:140223 original size:36 final size:34
Alignment explanation
Indices: 140182--140266 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 34
140172 AAGAGAAAAG
*
140182 ATCTCAAGTGAGATGAACTTTTTTTCGAGACAAATT
1 ATCTCAAGTGAGATGAA--TTGTTTCGAGACAAATT
*
140218 GTCTCAAGTGAGATG--TTGTTTCGAGACAAATT
1 ATCTCAAGTGAGATGAATTGTTTCGAGACAAATT
*
140250 ATCTCGAGTGAGATGAA
1 ATCTCAAGTGAGATGAA
140267 AAATTCCAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
32 29 0.67
36 14 0.33
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (34 bp):
ATCTCAAGTGAGATGAATTGTTTCGAGACAAATT
Found at i:140441 original size:71 final size:71
Alignment explanation
Indices: 140233--140531 Score: 227
Period size: 71 Copynumber: 4.3 Consensus size: 71
140223 AAGTGAGATG
** * * * * * * *
140233 TTGTTTCGAGACAAATTATCTCGAGTGAGATGAAAAATTCCAA--G-AAATATCTCAAGCGAGAT
1 TTGTTTCGAGTGAAACTGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAAAT
*
140295 GAAATT
66 GCAATT
*** * * * * * * *
140301 TTGTTTCGACCAAAACTGTATAGACTAAGAC--AATTTTTCAAGGAAAAATATATCAAGTAAGAA
1 TTGTTTCGAGTGAAACTGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGT--GAA
140364 A--CAATT
64 ATGCAATT
* * **
140370 TTATTTCGAGTGAAACTGTTTCGAGTGAGATTAAAATTTTCAAGGGAAAATATCTCAAGTGAAAT
1 TTGTTTCGAGTGAAACTGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAAAT
*
140435 GTAATT
66 GCAATT
** * * * *
140441 TTGTTTTTAGTAAAACTATCTCGAGTGAGACGAAAATTTTCAA-GGAAAACATCTCAAGTGAGAT
1 TTGTTTCGAGTGAAACTGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAAAT
140505 GCAATT
66 GCAATT
* *
140511 TTGTTTCGGGTGACACTGTCT
1 TTGTTTCGAGTGAAACTGTCT
140532 AACCTTAACA
Statistics
Matches: 174, Mismatches: 48, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
66 7 0.04
68 21 0.12
69 41 0.24
70 39 0.22
71 66 0.38
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (71 bp):
TTGTTTCGAGTGAAACTGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAAAT
GCAATT
Found at i:140637 original size:19 final size:21
Alignment explanation
Indices: 140613--140659 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
140603 GTTTGGTTCA
*
140613 GTAAAAGCC-TT-TGGTCAAT
1 GTAAAAGCCATTATGGTCAAC
140632 GTAAAA-CCAATTATGGTCAAC
1 GTAAAAGCC-ATTATGGTCAAC
140653 GTAAAAG
1 GTAAAAG
140660 AAGCTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.09
19 6 0.26
20 2 0.09
21 13 0.57
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (21 bp):
GTAAAAGCCATTATGGTCAAC
Found at i:142689 original size:20 final size:18
Alignment explanation
Indices: 142666--142718 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 18
142656 ATGTAATTGA
142666 TTTTCTAGAAATATAATTAG
1 TTTTCTA-AAAT-TAATTAG
142686 TTTTCTAAAATTAA-T--
1 TTTTCTAAAATTAATTAG
142701 TTTTCTGAAAATTAATTA
1 TTTTCT-AAAATTAATTA
142719 CAGCCAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.20
16 8 0.27
17 2 0.07
18 3 0.10
19 4 0.13
20 7 0.23
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTTCTAAAATTAATTAG
Found at i:142703 original size:14 final size:15
Alignment explanation
Indices: 142680--142717 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
142670 CTAGAAATAT
*
142680 AATTAGTTTTCT-AA
1 AATTAATTTTCTGAA
142694 AATTAATTTTTCTGAA
1 AATTAA-TTTTCTGAA
142710 AATTAATT
1 AATTAATT
142718 ACAGCCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (15 bp):
AATTAATTTTCTGAA
Found at i:143291 original size:21 final size:22
Alignment explanation
Indices: 143267--143314 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
143257 TAATCAAATT
143267 AAATAAAACATAAAATTATA-A
1 AAATAAAACATAAAATTATATA
** *
143288 AAATAAAATTTAAAGTTATATA
1 AAATAAAACATAAAATTATATA
143310 AAATA
1 AAATA
143315 TTCTAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATAAAACATAAAATTATATA
Found at i:143295 original size:14 final size:15
Alignment explanation
Indices: 143269--143301 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
143259 ATCAAATTAA
143269 ATAAAACATAAAATT
1 ATAAAACATAAAATT
143284 ATAAAA-ATAAAATT
1 ATAAAACATAAAATT
143298 -TAAA
1 ATAAA
143302 GTTATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 8 0.44
15 6 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAAAACATAAAATT
Found at i:144144 original size:27 final size:27
Alignment explanation
Indices: 144088--144196 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 27
144078 AATATTATTT
* *
144088 TTTTATTAAAAATATT--AATATTAGATA
1 TTTTATTAAAAATATTAAAAAATT-TA-A
144115 TTTTATTAAAAATATTAAAAAATTTAA
1 TTTTATTAAAAATATTAAAAAATTTAA
* * *
144142 TTTTAAATAAAAATAATAATATTTTAAATATT-T
1 TTTT-ATTAAAAATATTAA-A----AAAT-TTAA
144175 TTTTATTAAAAATATTAAAAAA
1 TTTTATTAAAAATATTAAAAAA
144197 ATAATAATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
27 24 0.36
28 13 0.20
29 6 0.09
31 1 0.02
32 12 0.18
33 8 0.12
34 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (27 bp):
TTTTATTAAAAATATTAAAAAATTTAA
Found at i:154304 original size:29 final size:28
Alignment explanation
Indices: 154251--154503 Score: 175
Period size: 30 Copynumber: 8.8 Consensus size: 28
154241 TTAAAATCAC
154251 ATCTTAACATTGAAAAATATATTTTATTGTT
1 ATCTTAAC-TT-AAAAATATATTTTATT-TT
*
154282 ATCTTAAC-TAAAATATATATTTTAATCTT
1 ATCTTAACTTAAAA-ATATATTTT-ATTTT
154311 ATCTTAACTTATAAAATATATTTTATTTCT
1 ATCTTAACTTA-AAAATATATTTTATTT-T
*
154341 ACCTTAACTTAAAAATATATTTTATTTTT
1 ATCTTAACTTAAAAATATATTTTA-TTTT
** ** *
154370 ATCTTAACTTGTTACGTATA--TTA-TAT
1 ATCTTAACTT-AAAAATATATTTTATTTT
*
154396 -TCTTAACTT-AAAAT-TA-TATATTTT
1 ATCTTAACTTAAAAATATATTTTATTTT
*
154420 AAT-TTAATTTAAAAATTATATTTTATTCTT
1 -ATCTTAACTTAAAAA-TATATTTTATT-TT
* * *
154450 ATTTTAATTTAATAAATATATTTAATTTTT
1 ATCTTAACTTAA-AAATATATTTTA-TTTT
*
154480 ATCTTAAATATAAAAA-ATAATTTT
1 ATCTTAACT-TAAAAATAT-ATTTT
154504 TATCTTAATT
Statistics
Matches: 181, Mismatches: 20, Indels: 43
0.74 0.08 0.18
Matches are distributed among these distances:
22 2 0.01
23 4 0.02
24 2 0.01
25 15 0.08
26 7 0.04
27 1 0.01
28 9 0.05
29 55 0.30
30 67 0.37
31 19 0.10
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (28 bp):
ATCTTAACTTAAAAATATATTTTATTTT
Done.