Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_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: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 31
Found at i:2625537 original size:121 final size:120
Alignment explanation
Indices: 2625298--2626025 Score: 676
Period size: 121 Copynumber: 6.2 Consensus size: 120
2625288 TAGTGCTATC
* * * * *
2625298 CCACCTCATTTTGTGAT-GATTTTGATC--AAATGTTGAACAAATGT-TTCTCATTATGAACTTC
1 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGGTCGAACAAGT-TCTTCTCATTATGAACTTC
* * * *
2625359 -TC-CC-C-TTCGGATAGA-TTCTTCTCATTATGAACCCTT-CATTGGAAATGCCTAT
65 TTCTCCTCATTC-GATCGAGTTCTTATCATTATGAA-CCTTCCATTGGAAATGTCGAT
** * * * * * * *
2625411 ATACCTCTTTTTGTGATGGATTTTGAGCAAAAAGGTCGAATAATTTATTCTTATTATGAACTTAT
1 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGGTCGAACAAGTTCTTCTCATTATGAACTTCT
* * *
2625476 CCTCCTCATTCGATCGAGTTCTTATCATTATTAATACTTCCATTGGAAATGTCGAT
66 TCTCCTCATTCGATCGAGTTCTTATCATTATGAA-CCTTCCATTGGAAATGTCGAT
* * *
2625532 CTACCTCATTCTATGATGAATTTTGAGCAAAAAGGAT-GAACAAGTTCTTCTCATTATGAACTTC
1 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGG-TCGAACAAGTTCTTCTCATTATGAACTTC
* * * *
2625596 TTCT-CTGTATTTGGA-CAAGTTC-TACTCATTATGAACCCTTCCATTGGAAATGTTGAT
65 TTCTCCT-CA-TTCGATCGAGTTCTTA-TCATTATGAA-CCTTCCATTGGAAATGTCGAT
*
2625653 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGATCGAACAAGTTCTTCTCATTATGAACTTCT
1 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGGTCGAACAAGTTCTTCTCATTATGAACTTCT
* *
2625718 TCTCCCTC-TTCAGAT-GAGTT-TTCTTATTATGAACCTTCCATTGGAAATGTCGAT
66 TCT-CCTCATTC-GATCGAGTTCTTATCATTATGAACCTTCCATTGGAAATGTCGAT
* *
2625772 CCACCTCATTCTGTGATGGAATTTGACCAAAAAGGTCGAACAAGTTCTTCTCATTATGAA---C-
1 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGGTCGAACAAGTTCTTCTCATTATGAACTTCT
* * *
2625833 T-T-CT--TTCGAT----TTCTTCTCATTATGAACCATTCCATTTGAAATGTTGAT
66 TCTCCTCATTCGATCGAGTTCTTATCATTATGAACC-TTCCATTGGAAATGTCGAT
* *
2625881 --A-CACATTCTATGATGGATTTTGAGCAAAAAGGTCGAACAAGTTCTTCTCATTATGAACTTCT
1 CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGGTCGAACAAGTTCTTCTCATTATGAACTTCT
* *** * * *
2625943 TCTCCCTC-TTTGAAAAAGTTATTCTCATTATGAACCATTCCATTGGAAATATCGAT
66 TCT-CCTCATTCGATCGAGTTCTTATCATTATGAACC-TTCCATTGGAAATGTCGAT
* *
2625999 CCACCTCCTTTTGTGATGGATTTTGAG
1 CCACCTCATTCTGTGATGGATTTTGAG
2626026 TATGTAAGAA
Statistics
Matches: 512, Mismatches: 66, Indels: 66
0.80 0.10 0.10
Matches are distributed among these distances:
106 52 0.10
107 3 0.01
108 14 0.03
109 18 0.04
110 4 0.01
111 4 0.01
112 2 0.00
113 16 0.03
114 14 0.03
115 2 0.00
116 27 0.05
117 1 0.00
118 36 0.07
119 83 0.16
120 37 0.07
121 192 0.38
122 5 0.01
123 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (120 bp):
CCACCTCATTCTGTGATGGATTTTGAGCAAAAAGGTCGAACAAGTTCTTCTCATTATGAACTTCT
TCTCCTCATTCGATCGAGTTCTTATCATTATGAACCTTCCATTGGAAATGTCGAT
Found at i:2625590 original size:20 final size:20
Alignment explanation
Indices: 2625567--2625631 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 20
2625557 AGCAAAAAGG
2625567 ATGAACAAGTTCTTCTCATT
1 ATGAACAAGTTCTTCTCATT
2625587 ATGAAC---TTCTTCTC-TGT
1 ATGAACAAGTTCTTCTCAT-T
* *
2625604 ATTTGGACAAGTTCTACTCATT
1 A--TGAACAAGTTCTTCTCATT
2625626 ATGAAC
1 ATGAAC
2625632 CCTTCCATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
16 1 0.03
17 10 0.29
19 4 0.11
20 10 0.29
22 9 0.26
23 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGAACAAGTTCTTCTCATT
Found at i:2625903 original size:106 final size:107
Alignment explanation
Indices: 2625738--2625943 Score: 317
Period size: 106 Copynumber: 1.9 Consensus size: 107
2625728 CAGATGAGTT
* * *
2625738 TTCTTATTATGAACCTTCCATTGGAAATGTCGATCCACCTCATTCTGTGATGGAATTTGACCAAA
1 TTCTCATTATGAACCTTCCATTGGAAATGTCGAT-CACCACATTCTATGATGGAATTTGACCAAA
2625803 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTTCGATTTC
65 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTTCGATTTC
* * * *
2625846 TTCTCATTATGAACCATTCCATTTGAAATGTTGAT-A-CACATTCTATGATGGATTTTGAGCAAA
1 TTCTCATTATGAACC-TTCCATTGGAAATGTCGATCACCACATTCTATGATGGAATTTGACCAAA
2625909 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTT
65 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTT
2625944 CTCCCTCTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
106 58 0.64
107 1 0.01
108 14 0.16
109 17 0.19
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (107 bp):
TTCTCATTATGAACCTTCCATTGGAAATGTCGATCACCACATTCTATGATGGAATTTGACCAAAA
AGGTCGAACAAGTTCTTCTCATTATGAACTTCTTTCGATTTC
Found at i:2627175 original size:7 final size:7
Alignment explanation
Indices: 2627163--2627205 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
2627153 GTCCTTTCAA
2627163 TTTTTCT
1 TTTTTCT
2627170 TTTTTCT
1 TTTTTCT
2627177 TTTTTCT
1 TTTTTCT
2627184 TTTTTCT
1 TTTTTCT
*
2627191 TCTTTTTT
1 T-TTTTCT
2627199 TTTTTCT
1 TTTTTCT
2627206 CAACTCCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:2627195 original size:17 final size:15
Alignment explanation
Indices: 2627163--2627203 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
2627153 GTCCTTTCAA
*
2627163 TTTTTCTTTTTTCTT
1 TTTTTTTTTTTTCTT
2627178 TTTTCTTTTTTCTTCTT
1 TTTT-TTTTTT-TTCTT
2627195 TTTTTTTTT
1 TTTTTTTTT
2627204 CTCAACTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:2630697 original size:9 final size:9
Alignment explanation
Indices: 2630685--2630725 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
2630675 TAAGAATAAT
*
2630685 GAATATAAA
1 GAATGTAAA
2630694 GAATGTAAA
1 GAATGTAAA
* *
2630703 AAATGTGAA
1 GAATGTAAA
2630712 GAATGTAAA
1 GAATGTAAA
2630721 GAATG
1 GAATG
2630726 ATTGCCATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (9 bp):
GAATGTAAA
Found at i:2634442 original size:15 final size:16
Alignment explanation
Indices: 2634416--2634449 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2634406 AAACAATAAA
*
2634416 CATGTAATGCAAAATG
1 CATGTAATGCAAAAGG
2634432 CATGT-ATGCAAAAGG
1 CATGTAATGCAAAAGG
2634447 CAT
1 CAT
2634450 TGATCCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (16 bp):
CATGTAATGCAAAAGG
Found at i:2636365 original size:24 final size:24
Alignment explanation
Indices: 2636303--2636381 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
2636293 GAGTTGAGGG
* *
2636303 TTCTACGCGGTCCTTCAGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
* *
2636327 TTTCTATGTGGTCCTTCGGGGCAAA
1 -TTCTATGCGGTCCTTCGGGACAAA
* *
2636352 TTCTATGCGATCCTTCGAGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
2636376 -TCTATG
1 TTCTATG
2636382 TGGCACTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 6 0.13
24 20 0.43
25 20 0.43
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (24 bp):
TTCTATGCGGTCCTTCGGGACAAA
Found at i:2643232 original size:25 final size:25
Alignment explanation
Indices: 2643192--2643265 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
2643182 TAGTCGAGGG
* *
2643192 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACACAGTCCTTCGGGACAAAT
** * *
2643217 TTCTACATGGTTCTTCGGGA-AAAA
1 TTCTACACAGTCCTTCGGGACAAAT
*
2643241 TTCTACGCAGTCCTTCGGGACAAAT
1 TTCTACACAGTCCTTCGGGACAAAT
2643266 CTATGTGGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
TTCTACACAGTCCTTCGGGACAAAT
Found at i:2643256 original size:24 final size:24
Alignment explanation
Indices: 2643192--2643265 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
2643182 TAGTCGAGGG
*
2643192 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACGCGGTCCTTCGGGA-AAAA
** *
2643217 TTCTACATGGTTCTTCGGGAAAAA
1 TTCTACGCGGTCCTTCGGGAAAAA
* *
2643241 TTCTACGCAGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGAAAAA
2643265 T
1 T
2643266 CTATGTGGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 23 0.57
25 17 0.43
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGAAAAA
Found at i:2651082 original size:137 final size:138
Alignment explanation
Indices: 2650855--2651287 Score: 450
Period size: 138 Copynumber: 3.1 Consensus size: 138
2650845 ATTAACTTAC
* * * * * * ** * *
2650855 TCAATTTTAACCAATTCTTTGATTCAAATAATTAAAATGGAACCTCGAACAAAAGCAAGTACTAA
1 TCAATTTTAATCAATTATGTCATTCGAATAATTAAAATGGAACCTCGAGCAAAAGTGAGGACCAA
* * *
2650920 ATTAAGAATTAGCCTAAATTTAAGGACTAAAATTGAAATTAATCCAAAAATGAAGCTCTAATATT
66 ATTAAGAATTAACCTAAATTTAAGGACTAAAATTGAAATTAATCCTAAAGTGAAGCTCTAATATT
2650985 AATCCTAA
131 AATCCTAA
* *
2650993 TCAATTTTAATCAATTATGTCATTCGAATAATTAAAATGGAATC-CGGGCAAAAGTGAGGACCAA
1 TCAATTTTAATCAATTATGTCATTCGAATAATTAAAATGGAACCTCGAGCAAAAGTGAGGACCAA
* ** * *
2651057 ATTAAAAATTCCCCTAAATATAAGGACT-AAGTGTGAAATTAAGT-CTAAAGTGAAAGCTCTAAT
66 ATTAAGAATTAACCTAAATTTAAGGACTAAAAT-TGAAATTAA-TCCTAAAGTG-AAGCTCTAA-
*
2651120 TGTTAA-CCTAA
127 TATTAATCCTAA
* *
2651131 TTAATTTTAATCAATTAT-ACAAGTT-GAATAATTAAAATGGAACCTCGAGCAAAA-TCGAGGA-
1 TCAATTTTAATCAATTATGTC-A-TTCGAATAATTAAAATGGAACCTCGAGCAAAAGT-GAGGAC
* * * * * * *
2651192 CAAATTAAGAATTTACCTAAATTTAAGGACTAGATTTGAAATTAAGCCTAAAGTGGATGATATAA
63 CAAATTAAGAATTAACCTAAATTTAAGGACTAAAATTGAAATTAATCCTAAAGT-GAAGCTCTAA
**
2651257 TATTGTTCCTAA
127 TATTAATCCTAA
2651269 TCAATTTTAATCAATTATG
1 TCAATTTTAATCAATTATG
2651288 CAATTATTCA
Statistics
Matches: 244, Mismatches: 38, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
136 3 0.01
137 57 0.23
138 161 0.66
139 23 0.09
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (138 bp):
TCAATTTTAATCAATTATGTCATTCGAATAATTAAAATGGAACCTCGAGCAAAAGTGAGGACCAA
ATTAAGAATTAACCTAAATTTAAGGACTAAAATTGAAATTAATCCTAAAGTGAAGCTCTAATATT
AATCCTAA
Found at i:2651693 original size:14 final size:14
Alignment explanation
Indices: 2651641--2651694 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
2651631 TTTATGGCAG
2651641 AAATTGAAATAACATA
1 AAATT-AAATAACA-A
**
2651657 AAATTAAATAGTAA
1 AAATTAAATAACAA
2651671 AAATTTAAATAACAA
1 AAA-TTAAATAACAA
*
2651686 AAACTAAAT
1 AAATTAAAT
2651695 CAATGAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 9 0.28
15 18 0.56
16 5 0.16
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.26
Consensus pattern (14 bp):
AAATTAAATAACAA
Found at i:2657970 original size:23 final size:20
Alignment explanation
Indices: 2657944--2657984 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
2657934 TGAGAATTCT
2657944 TTTTCTTCAATCTATCTTCTATA
1 TTTTCTT-AATC-AT-TTCTATA
2657967 TTTTCTTAATCATTTCTA
1 TTTTCTTAATCATTTCTA
2657985 AAATTCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 4 0.22
23 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTCTTAATCATTTCTATA
Found at i:2659053 original size:3 final size:3
Alignment explanation
Indices: 2659045--2659241 Score: 193
Period size: 3 Copynumber: 69.0 Consensus size: 3
2659035 GGTAGTGTAA
* *
2659045 AAT AAT AAT AAT AAT AAT -AG AAT AAT AAT AAT AA- AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
2659091 AAT AGT -AT AAT AAT AA- AA- AAG GAT AAT AAT AAT AAT GAT AAT -AG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
2659135 AAT AAT AAT AAC AA- AAT AAT AAT AAT AAT AA- GAT AAT AAT AA- AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2659180 AAT AAT AAT AAT AAT AAT GAA- AA- AGAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
2659224 AAT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
2659242 GGTAAAAAAT
Statistics
Matches: 162, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
2 18 0.11
3 141 0.87
4 3 0.02
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2659070 original size:17 final size:16
Alignment explanation
Indices: 2659044--2659241 Score: 174
Period size: 17 Copynumber: 11.8 Consensus size: 16
2659034 AGGTAGTGTA
2659044 AAATAATAATAATAAT
1 AAATAATAATAATAAT
*
2659060 AATAGAATAATAATAAT
1 AA-ATAATAATAATAAT
*
2659077 AAAATAATAAAAATAAT
1 -AAATAATAATAATAAT
*
2659094 AGTATAATAATAA-AA-
1 A-AATAATAATAATAAT
2659109 AAGGATAATAATAATAAT
1 AA--ATAATAATAATAAT
*
2659127 GATAATAGAATAATAATAACA
1 -A-AAT--AATAATAATAA-T
2659148 AAATAATAATAATAAT
1 AAATAATAATAATAAT
2659164 AAGATAATAATAAAGTAAT
1 AA-ATAATAAT-AA-TAAT
2659183 -AATAATAATAATAAT
1 AAATAATAATAATAAT
*
2659198 GAAAAAGATAATAATAAT
1 -AAATA-ATAATAATAAT
2659216 -AATAATAA-AATAAT
1 AAATAATAATAATAAT
2659230 AAA-AATAATAAT
1 AAATAATAATAAT
2659242 GGTAAAAAAT
Statistics
Matches: 152, Mismatches: 10, Indels: 41
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.07
15 14 0.09
16 22 0.14
17 66 0.43
18 18 0.12
19 8 0.05
20 13 0.09
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:2662279 original size:17 final size:18
Alignment explanation
Indices: 2662257--2662297 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
2662247 AAAAAATATT
*
2662257 AAATAAATCAAA-TAAAA
1 AAATAAATAAAAGTAAAA
2662274 AAATAAAATAAAAGTAAAA
1 AAAT-AAATAAAAGTAAAA
2662293 AAATA
1 AAATA
2662298 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 9 0.43
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATAAATAAAAGTAAAA
Found at i:2668471 original size:28 final size:28
Alignment explanation
Indices: 2668411--2668472 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
2668401 TTAAACTGAC
* * * **
2668411 AATCAAGATTTAGGTTCAATCAGGTGTG
1 AATCAAGATTTAGGCTCAATAAGATAAG
2668439 AATCAAGATTTAGGCTCAATAAGATAAG
1 AATCAAGATTTAGGCTCAATAAGATAAG
*
2668467 GATCAA
1 AATCAA
2668473 AGTGAATTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (28 bp):
AATCAAGATTTAGGCTCAATAAGATAAG
Found at i:2671458 original size:109 final size:109
Alignment explanation
Indices: 2671139--2671507 Score: 582
Period size: 109 Copynumber: 3.4 Consensus size: 109
2671129 ACTATGCGTA
2671139 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGAACTTTGTGTGCAAAACTAAG
*
2671204 AAATTCATAATAAATTTATGAATTT-TCGTATGGGCACTTTGTGTG
65 AAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTGTGTG
*
2671249 AAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGAGACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGA-ACTTTGTGTGCAAAACTAAG
* *
2671314 AAATTCATATTAAGTTTATGAATTTCTGT-TTGGCACTTTGTGTG
65 AAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
* * *
2671358 CAAAACTAAAAAATTCATAATAAGTTTATGAATTT-CTTATAGGCACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGAACTTTGTGTGCAAAACTAAG
* *
2671422 AAAATCATAATAAGTTTATAAATTTCTGTATGGGCACTTTGTGTG
65 AAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
* *
2671467 CAAAACTATGAAATTCATAATAAGTTTATGAATTTCTGTAT
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
2671508 TGGTAGTGGG
Statistics
Matches: 238, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
108 50 0.21
109 99 0.42
110 88 0.37
111 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (109 bp):
CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGAACTTTGTGTGCAAAACTAAGA
AATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
Found at i:2671536 original size:55 final size:55
Alignment explanation
Indices: 2671139--2671507 Score: 584
Period size: 55 Copynumber: 6.7 Consensus size: 55
2671129 ACTATGCGTA
* *
2671139 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTTTGTGTG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
*
2671194 CAAAACTAAGAAATTCATAATAAATTTATGAATTT-TCGTATGGGCACTTTGTGTG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTGTGTG
* *
2671249 AAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGAG-ACTTTGTGTG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGG-GCACTTTGTGTG
* *
2671304 CAAAACTAAGAAATTCATATTAAGTTTATGAATTTCTGT-TTGGCACTTTGTGTG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
* *
2671358 CAAAACTAAAAAATTCATAATAAGTTTATGAATTTCT-TATAGGCACTTTGTGTG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
* *
2671412 CAAAACTAAGAAAATCATAATAAGTTTATAAATTTCTGTATGGGCACTTTGTGTG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
*
2671467 CAAAACTATGAAATTCATAATAAGTTTATGAATTTCTGTAT
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
2671508 TGGTAGTGGG
Statistics
Matches: 288, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
53 2 0.01
54 95 0.33
55 190 0.66
56 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (55 bp):
CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG
Found at i:2671543 original size:109 final size:108
Alignment explanation
Indices: 2671139--2671553 Score: 516
Period size: 109 Copynumber: 3.8 Consensus size: 108
2671129 ACTATGCGTA
*
2671139 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG-ACTTTGTGTGCAAAACTAAG
* * *
2671204 AAATTCATAATAAATTTATGAATTT-TCGTATGGGCACTTTGTGTG
65 AAATT-ACAATAAGTTTATAAATTTCT-GTATGGGCACTTTGTGTG
* *
2671249 AAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGAGACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTG-GACTTTGTGTGCAAAACTAAG
* *
2671314 AAATT-CATATTAAGTTTATGAATTTCTGT-TTGGCACTTTGTGTG
65 AAATTACA-A-TAAGTTTATAAATTTCTGTATGGGCACTTTGTGTG
* * *
2671358 CAAAACTAAAAAATTCATAATAAGTTTATGAATTT-CTTATAGGCACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG-ACTTTGTGTGCAAAACTAAG
* *
2671422 AAAATCATAATAAGTTTATAAATTTCTGTATGGGCACTTTGTGTG
65 -AAATTACAATAAGTTTATAAATTTCTGTATGGGCACTTTGTGTG
* * * ** * * *
2671467 CAAAACTATGAAATTCATAATAAGTTTATGAATTTCTGTATTGGTAGTGGGCGTGC-AAACCACG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG-ACTTTGTGTGCAAAACTAAG
2671531 TAAATTACAATAAGTTTATAAAT
65 -AAATTACAATAAGTTTATAAAT
2671554 CACCATATTG
Statistics
Matches: 269, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
107 1 0.00
108 44 0.16
109 126 0.47
110 96 0.36
111 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (108 bp):
CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGACTTTGTGTGCAAAACTAAGA
AATTACAATAAGTTTATAAATTTCTGTATGGGCACTTTGTGTG
Found at i:2671597 original size:163 final size:163
Alignment explanation
Indices: 2671139--2671582 Score: 437
Period size: 163 Copynumber: 2.7 Consensus size: 163
2671129 ACTATGCGTA
* * * ** * * *
2671139 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAAAACTAAG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGT-TTGGCACTGGGCGTGCAAAACCAAA
* * * ** * * * ** * *
2671204 AAATTCATAATAAATTTATGAATTTTCGTATGGGCACTTTGTGTGAAAAACTAAGAAATTCATAA
65 AAATTCACAATAAGTTTAT-AAATACCATATAGACACTACGTGTGCAAAACTAAGAAAATCATAA
*
2671269 TAAGTTTATGAATTTCCGTATGGAGACTTTGTGTG
129 TAAGTTTATAAATTTCCGTATGGAGACTTTGTGTG
* ** * *
2671304 CAAAACTAAGAAATTCATATTAAGTTTATGAATTTCTGTTTGGCACTTTGTGTGCAAAACTAAAA
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTTTGGCACTGGGCGTGCAAAACCAAAA
* * ** * * **
2671369 AATTCATAATAAGTTTATGAATTTCTTATAGGCACTTTGTGTGCAAAACTAAGAAAATCATAATA
66 AATTCACAATAAGTTTATAAATACCATATAGACACTACGTGTGCAAAACTAAGAAAATCATAATA
*
2671434 AGTTTATAAATTTCTGTATGG-GCACTTTGTGTG
131 AGTTTATAAATTTCCGTATGGAG-ACTTTGTGTG
* * * *
2671467 CAAAACTATGAAATTCATAATAAGTTTATGAATTTCTGTATTGGTAGTGGGCGTGC-AAACCACG
1 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGT-TTGGCACTGGGCGTGCAAAACCA-A
* *
2671531 TAAATT-ACAATAAGTTTATAAATCACCATATTGACACTACGTGTG-AAAACTA
64 AAAATTCACAATAAGTTTATAAAT-ACCATATAGACACTACGTGTGCAAAACTA
2671583 TAGAGTTTAT
Statistics
Matches: 242, Mismatches: 33, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
162 1 0.00
163 134 0.55
164 70 0.29
165 37 0.15
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (163 bp):
CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTTTGGCACTGGGCGTGCAAAACCAAAA
AATTCACAATAAGTTTATAAATACCATATAGACACTACGTGTGCAAAACTAAGAAAATCATAATA
AGTTTATAAATTTCCGTATGGAGACTTTGTGTG
Found at i:2673589 original size:2 final size:2
Alignment explanation
Indices: 2673582--2673608 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2673572 GATTTCAGAA
2673582 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 A
2673609 GCTTTGTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2678353 original size:139 final size:134
Alignment explanation
Indices: 2678177--2678574 Score: 494
Period size: 139 Copynumber: 2.9 Consensus size: 134
2678167 GGTGGAAACA
* *
2678177 AGCTAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATAAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCA
* * * ** * *
2678242 TTATGAACTCTCTATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCTTATGT
66 TTATGAACTCTCTATTTGAAATGTTGATCCCTCAAGTGAGGCGTCACTAATTCAA-----AATGT
2678307 -GATGAATCG
126 CG-TGAATCG
* * * *
2678316 AGCTAAGGTTGAACAGGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTATTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCA
*
2678381 TTATGAACTCTCCATTTGAAATGTTGATCCCTCAAGTGAGGCGTCACTAATTCAAAATGTCGTGA
66 TTATGAACTCTCTATTTGAAATGTTGATCCCTCAAGTGAGGCGTCACTAATTCAAAATGTCGTGA
2678446 ATCG
131 ATCG
* * * * * *
2678450 TG-TGATAGATCGAACAAGCTCTTCTCATTATGAAATTCTTCTCCCTCTGTCGGATGAGTTCTTC
1 AGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TATCGGATGAGTTCTTC
* * *
2678514 TCATTATGAACTCTCTATTTGAAATGTTTATCCCTCCAGTGAGGCATCACTAATTCAAAAT
63 TCATTATGAACTCTCTATTTGAAATGTTGATCCCTCAAGTGAGGCGTCACTAATTCAAAAT
2678575 ACCGTGAAAC
Statistics
Matches: 227, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
133 1 0.00
134 13 0.06
135 36 0.16
136 70 0.31
139 107 0.47
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (134 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCA
TTATGAACTCTCTATTTGAAATGTTGATCCCTCAAGTGAGGCGTCACTAATTCAAAATGTCGTGA
ATCG
Found at i:2680583 original size:18 final size:18
Alignment explanation
Indices: 2680548--2680677 Score: 69
Period size: 17 Copynumber: 7.3 Consensus size: 18
2680538 ATTTGATCGA
*
2680548 TTTTC-TTTC-TTCTTTC
1 TTTTCTTTTCTTTTTTTC
2680564 TTCTTCTTTT-TTTTTTTC
1 TT-TTCTTTTCTTTTTTTC
*
2680582 TTCTATTTTTTCTATTTTTTCC
1 TT-T-TCTTTTCT-TTTTTT-C
*
2680604 TTTT-TTTT-TTCTTTTC
1 TTTTCTTTTCTTTTTTTC
* *
2680620 TTTTCTTTT-GTTTTTCC
1 TTTTCTTTTCTTTTTTTC
* *
2680637 TTTCCTTTTCCTTTTATTC
1 TTTTCTTTT-CTTTTTTTC
* *
2680656 -TTT-TTTTCTTTCTTTA
1 TTTTCTTTTCTTTTTTTC
2680672 TTTTCT
1 TTTTCT
2680678 ATCTTTTTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
16 13 0.15
17 32 0.36
18 17 0.19
19 14 0.16
20 2 0.02
21 7 0.08
22 3 0.03
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTCTTTTTTTC
Found at i:2680627 original size:21 final size:21
Alignment explanation
Indices: 2680572--2680684 Score: 79
Period size: 22 Copynumber: 5.2 Consensus size: 21
2680562 TCTTCTTCTT
* *
2680572 TTTTTTTTTCTTCTATTTTTTC
1 TTTTCTTTTCTT-TTTTTTTTC
*
2680594 TATTT-TTTCCTTTTTTTTTTC
1 T-TTTCTTTTCTTTTTTTTTTC
*
2680615 TTTTCTTTTCTTTTGTTTTTCC
1 TTTTCTTTTCTTTT-TTTTTTC
* *
2680637 TTTCCTTTTCCTTTTATTCTTT-
1 TTTTCTTTT-CTTTT-TTTTTTC
*
2680659 TTTTC-TTTCTTTATTTTCTATC
1 TTTTCTTTTCTTT-TTTT-TTTC
2680681 TTTT
1 TTTT
2680685 TAAATCTCTT
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
20 9 0.12
21 23 0.32
22 29 0.40
23 12 0.16
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTCTTTTTTTTTTC
Found at i:2680634 original size:33 final size:33
Alignment explanation
Indices: 2680571--2680639 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
2680561 TTCTTCTTCT
*
2680571 TTTTTTTTTTCTTCTATTTTTTCTATTTTTTCC
1 TTTTTTTTTTCTTCTATCTTTTCTATTTTTTCC
*
2680604 TTTTTTTTTTCTT-T-TCTTTTCTTTTGTTTTTCC
1 TTTTTTTTTTCTTCTATCTTTTC-TAT-TTTTTCC
2680637 TTT
1 TTT
2680640 CCTTTTCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 6 0.19
32 3 0.09
33 23 0.72
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.81
Consensus pattern (33 bp):
TTTTTTTTTTCTTCTATCTTTTCTATTTTTTCC
Found at i:2680645 original size:11 final size:11
Alignment explanation
Indices: 2680598--2680651 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
2680588 TTTTTCTATT
*
2680598 TTTTCCTTTTT
1 TTTTCCTTTTC
*
2680609 TTTTTCTTTTC
1 TTTTCCTTTTC
*
2680620 TTTT-CTTTTGT
1 TTTTCCTTTT-C
*
2680631 TTTTCCTTTCC
1 TTTTCCTTTTC
2680642 TTTTCCTTTT
1 TTTTCCTTTT
2680652 ATTCTTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 5 0.14
11 26 0.74
12 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTCCTTTTC
Found at i:2686638 original size:138 final size:139
Alignment explanation
Indices: 2686353--2686883 Score: 584
Period size: 138 Copynumber: 3.8 Consensus size: 139
2686343 GTGATGTTCT
*
2686353 AACTCCATATGCGATGGAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
1 AACT-CATATGTGAT-GAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* ** * * * * *
2686418 CTT-ATTGGATGAGTTCTTT-AAATTATAAACTCTCCACTAGAAAAGTTGATCTCTCGAGTGAGG
64 CTTCATCGGATGAGTT-TTTCTCATTATGAACTCTCCATTTGAAATGTTGATCCCTCGAGTGAGG
* *
2686481 TGTTGCTGATTG
128 TGTTGTTGATTC
* * *
2686493 AACTCATATGTGACGAAACGAGCTAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCT-CCT
1 AACTCATATGTGATGAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT
** * *
2686557 TCATTAGATGAGTTTTTCTTATT-TGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGT
66 TCATCGGATGAGTTTTTCTCATTATGAACTCTCCATTTGAAATGTTGATCCCTCGAGTGAGGTGT
2686621 TGTTGATTC
131 TGTTGATTC
* * * *
2686630 AACTTCATATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTTTTCC
1 AAC-TCATATGTGATGAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
* * * *
2686695 -TCATCGGATGAGTTATTCTCATTATGAACTCTCCATTTGAAATGTTGTTCCCTCAAGCGA--TG
65 TTCATCGGATGAGTTTTTCTCATTATGAACTCTCCATTTGAAATGTTGATCCCTCGAGTGAGGTG
* *
2686757 CATCTCTGATTC
130 -TTGT-TGATTC
* * * *
2686769 GA---A-ATGTCG-TGAATCAAG-TGATAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTC
1 AACTCATATGT-GATGAAACAAGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
* *
2686828 CCTTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATGTTGATCCCT
63 CCTTCATCGGATGAGTTTTTCTCATTATGAACTCTCCATTTGAAATGTTGATCCCT
2686884 ACAGCGAGGC
Statistics
Matches: 341, Mismatches: 39, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
133 1 0.00
134 14 0.04
135 36 0.11
136 50 0.15
137 55 0.16
138 132 0.39
139 49 0.14
140 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (139 bp):
AACTCATATGTGATGAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT
TCATCGGATGAGTTTTTCTCATTATGAACTCTCCATTTGAAATGTTGATCCCTCGAGTGAGGTGT
TGTTGATTC
Found at i:2689278 original size:7 final size:7
Alignment explanation
Indices: 2689262--2689433 Score: 328
Period size: 7 Copynumber: 24.7 Consensus size: 7
2689252 TCGGTTTTCT
2689262 TTCTTC-
1 TTCTTCA
*
2689268 TTCTTCT
1 TTCTTCA
2689275 TTCTTCA
1 TTCTTCA
2689282 TTCTTCA
1 TTCTTCA
2689289 TTCTTCA
1 TTCTTCA
2689296 TTCTTCA
1 TTCTTCA
2689303 TTCTTCA
1 TTCTTCA
2689310 TTCTTCA
1 TTCTTCA
2689317 TTCTTCA
1 TTCTTCA
2689324 TTCTTCA
1 TTCTTCA
2689331 TTCTTCA
1 TTCTTCA
2689338 TTCTTCA
1 TTCTTCA
2689345 TTCTTCA
1 TTCTTCA
2689352 TTCTTCA
1 TTCTTCA
2689359 TTCTTCA
1 TTCTTCA
2689366 TTCTTCA
1 TTCTTCA
2689373 TTCTTCA
1 TTCTTCA
2689380 TTCTTCA
1 TTCTTCA
2689387 TTCTTCA
1 TTCTTCA
2689394 TTCTTCA
1 TTCTTCA
2689401 TTCTTCA
1 TTCTTCA
2689408 TTCTTCA
1 TTCTTCA
2689415 TTCTTCA
1 TTCTTCA
2689422 TTCTTCA
1 TTCTTCA
2689429 TTCTT
1 TTCTT
2689434 TTTTTCTCTC
Statistics
Matches: 164, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
6 6 0.04
7 158 0.96
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCA
Found at i:2689479 original size:8 final size:8
Alignment explanation
Indices: 2689468--2689516 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
2689458 TCTTTTCTTT
2689468 TTTTTCTA
1 TTTTTCTA
2689476 TTTTTCTA
1 TTTTTCTA
2689484 TTTTTCTA
1 TTTTTCTA
2689492 -TTTTCT-
1 TTTTTCTA
*
2689498 TTTTTCTT
1 TTTTTCTA
2689506 TTTTTCT-
1 TTTTTCTA
2689513 TTTT
1 TTTT
2689517 CTTATGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 16 0.41
8 23 0.59
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTA
Found at i:2689487 original size:15 final size:14
Alignment explanation
Indices: 2689467--2689578 Score: 66
Period size: 15 Copynumber: 7.4 Consensus size: 14
2689457 ATCTTTTCTT
2689467 TTTTTTCTATTTTTC
1 TTTTTTCTA-TTTTC
2689482 TATTTTTCTATTTTC
1 T-TTTTTCTATTTTC
*
2689497 TTTTTTCT-TTTTT
1 TTTTTTCTATTTTC
2689510 TCTTTTTCTTATGTTT-
1 T-TTTTTC-TAT-TTTC
* *
2689526 TTCCTTTCTTTTTTC
1 TT-TTTTCTATTTTC
* *
2689541 TTTTTATGTTTTTTC
1 TTTTT-TCTATTTTC
*
2689556 TTTCTTTCTTTTCTATC
1 TTT-TTTCTATT-T-TC
2689573 TTTTTT
1 TTTTTT
2689579 TATGTATTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
13 5 0.06
14 18 0.22
15 29 0.36
16 20 0.25
17 8 0.10
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTTCTATTTTC
Found at i:2689496 original size:32 final size:33
Alignment explanation
Indices: 2689429--2689502 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
2689419 TCATTCTTCA
* *
2689429 TTCTTTTTTTCTCTCTCTTTTATCTTTTATCTT
1 TTCTTTTTTTCTCTATCTTTTATCTTTTATATT
* *
2689462 TTCTTTTTTT-TCTATTTTTCTAT-TTTTCTATT
1 TTCTTTTTTTCTCTATCTTT-TATCTTTTATATT
2689494 TTCTTTTTT
1 TTCTTTTTT
2689503 CTTTTTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 23 0.64
33 13 0.36
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (33 bp):
TTCTTTTTTTCTCTATCTTTTATCTTTTATATT
Found at i:2689508 original size:37 final size:37
Alignment explanation
Indices: 2689458--2689545 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
2689448 TTATCTTTTA
*
2689458 TCTTTTCTT-TTTTTTCTATTTTTC-TAT-TTTTCTATTT
1 TCTTTT-TTCTTTTTT-TATTTTTCTTATGTTTT-TACTT
* *
2689495 TCTTTTTTCTTTTTTTCTTTTTCTTATGTTTTTCCTT
1 TCTTTTTTCTTTTTTTATTTTTCTTATGTTTTTACTT
2689532 TCTTTTTTCTTTTT
1 TCTTTTTTCTTTTT
2689546 ATGTTTTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
36 9 0.20
37 32 0.71
38 4 0.09
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.80
Consensus pattern (37 bp):
TCTTTTTTCTTTTTTTATTTTTCTTATGTTTTTACTT
Found at i:2689534 original size:30 final size:28
Alignment explanation
Indices: 2689500--2689569 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 28
2689490 TATTTTCTTT
2689500 TTTCTTTTTTTCTTTTTCTTATGTTTTTCC
1 TTTCTTTTTTTC-TTTT-TTATGTTTTTCC
*
2689530 TTTC-TTTTTTC-TTTTTATGTTTTTTC
1 TTTCTTTTTTTCTTTTTTATGTTTTTCC
2689556 TTTCTTTCTTTTCT
1 TTTCTTT-TTTTCT
2689570 ATCTTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 15 0.42
27 5 0.14
28 5 0.14
29 7 0.19
30 4 0.11
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (28 bp):
TTTCTTTTTTTCTTTTTTATGTTTTTCC
Found at i:2689537 original size:11 final size:10
Alignment explanation
Indices: 2689429--2689577 Score: 51
Period size: 11 Copynumber: 14.2 Consensus size: 10
2689419 TCATTCTTCA
2689429 TTCTTT-TTT
1 TTCTTTCTTT
*
2689438 TCTCTCTCTTT
1 T-TCTTTCTTT
*
2689449 TATCTTTTATCTT
1 T-TC-TTTCT-TT
2689462 TTCTTT-TTT
1 TTCTTTCTTT
2689471 TTCTATT-TTT
1 TTCT-TTCTTT
*
2689481 CTATTTTTCTATT
1 -T-TCTTTCT-TT
*
2689494 TTCTTTTTTCT
1 TTCTTTCTT-T
*
2689505 TTTTTTCTTT
1 TTCTTTCTTT
*
2689515 TTCTTATGTTT
1 TTCTT-TCTTT
2689526 TTCCTTTCTTTT
1 TT-CTTTC-TTT
2689538 TTCTTT-TTAT
1 TTCTTTCTT-T
*
2689548 GTT-TTT-TCT
1 -TTCTTTCTTT
2689557 TTCTTTC-TT
1 TTCTTTCTTT
*
2689566 TTCTATCTTT
1 TTCTTTCTTT
2689576 TT
1 TT
2689578 TTATGTATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 35
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.02
9 20 0.19
10 25 0.23
11 38 0.36
12 17 0.16
13 5 0.05
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.77
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:2689547 original size:26 final size:25
Alignment explanation
Indices: 2689478--2689562 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
2689468 TTTTTCTATT
*
2689478 TTTCTATTTTTCTATTTTCT-TTTTTC
1 TTTCT-TTTTTCT-TTTTATGTTTTTC
2689504 TTT-TTTTCTT-TTTCTTATGTTTTTCC
1 TTTCTTTT-TTCTTT-TTATGTTTTT-C
2689530 TTTCTTTTTTCTTTTTATGTTTTTTC
1 TTTCTTTTTTCTTTTTATG-TTTTTC
2689556 TTTCTTT
1 TTTCTTT
2689563 CTTTTCTATC
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
23 2 0.04
24 7 0.14
25 8 0.16
26 22 0.43
27 12 0.24
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTCTTTTTTCTTTTTATGTTTTTC
Found at i:2689563 original size:8 final size:7
Alignment explanation
Indices: 2689444--2689578 Score: 105
Period size: 7 Copynumber: 18.1 Consensus size: 7
2689434 TTTTTCTCTC
*
2689444 TCTTTTA
1 TCTTTTT
*
2689451 TCTTTTA
1 TCTTTTT
2689458 TCTTTTCT
1 TCTTTT-T
2689466 T-TTTTT
1 TCTTTTT
2689472 TCTATTTT
1 TCT-TTTT
2689480 TCTATTTT
1 TCT-TTTT
*
2689488 TCTATTT
1 TCTTTTT
2689495 TCTTTTT
1 TCTTTTT
2689502 TCTTTTT
1 TCTTTTT
2689509 T-TCTTTT
1 TCT-TTTT
2689516 TCTTATGTT
1 TCTT-T-TT
*
2689525 T-TTCCTT
1 TCTT-TTT
2689532 TCTTTTT
1 TCTTTTT
2689539 TCTTTTT
1 TCTTTTT
*
2689546 ATGTTTTT
1 -TCTTTTT
2689554 TCTTTCTT
1 TCTTT-TT
2689562 TCTTTTCT
1 TCTTTT-T
2689570 ATCTTTTT
1 -TCTTTTT
2689578 T
1 T
2689579 TATGTATTTT
Statistics
Matches: 108, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
6 3 0.03
7 59 0.55
8 37 0.34
9 9 0.08
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (7 bp):
TCTTTTT
Found at i:2689609 original size:34 final size:34
Alignment explanation
Indices: 2689541--2689609 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
2689531 TTCTTTTTTC
* * *
2689541 TTTTTATGTTTTTTCTTTCTTTCTTTTCTATCTT
1 TTTTTATGTATTTTCTTGCTTTCTTTCCTATCTT
2689575 TTTTTATGTATTTT-TTGCTATATCTTTCCT-TCTT
1 TTTTTATGTATTTTCTTGCT-T-TCTTTCCTATCTT
2689609 T
1 T
2689610 CTCTCTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 4 0.13
34 19 0.63
35 7 0.23
ACGTcount: A:0.09, C:0.14, G:0.04, T:0.72
Consensus pattern (34 bp):
TTTTTATGTATTTTCTTGCTTTCTTTCCTATCTT
Found at i:2690851 original size:23 final size:23
Alignment explanation
Indices: 2690824--2690872 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
2690814 ACTCGAACTT
2690824 GATTCAATCTCGATTTTGAGCTC
1 GATTCAATCTCGATTTTGAGCTC
2690847 GATTCAATCTCGATTTTGAGCTC
1 GATTCAATCTCGATTTTGAGCTC
2690870 GAT
1 GAT
2690873 GGGTATTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (23 bp):
GATTCAATCTCGATTTTGAGCTC
Found at i:2692877 original size:14 final size:14
Alignment explanation
Indices: 2692845--2692935 Score: 76
Period size: 14 Copynumber: 6.5 Consensus size: 14
2692835 CATATAAAGC
*
2692845 CTAAATCCTAAACT
1 CTAAACCCTAAACT
* *
2692859 ATAAACCCTAAATT
1 CTAAACCCTAAACT
*
2692873 CTAAACCTTAAA-T
1 CTAAACCCTAAACT
* * *
2692886 CTCATCACATAAACT
1 CTAAAC-CCTAAACT
*
2692901 CTAAAACCTAAACT
1 CTAAACCCTAAACT
* *
2692915 TTAAACCCTAAACC
1 CTAAACCCTAAACT
2692929 CTAAACC
1 CTAAACC
2692936 TTATCACATA
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
13 5 0.08
14 50 0.85
15 4 0.07
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:2692884 original size:21 final size:21
Alignment explanation
Indices: 2692837--2692878 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2692827 ACCCTTAACA
*
2692837 TATAAAGCCTAAATCCTAAAC
1 TATAAACCCTAAATCCTAAAC
*
2692858 TATAAACCCTAAATTCTAAAC
1 TATAAACCCTAAATCCTAAAC
2692879 CTTAAATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (21 bp):
TATAAACCCTAAATCCTAAAC
Found at i:2692919 original size:21 final size:21
Alignment explanation
Indices: 2692895--2692934 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2692885 TCTCATCACA
*
2692895 TAAACTCTAAAACCTAAACTT
1 TAAACCCTAAAACCTAAACTT
*
2692916 TAAACCCTAAACCCTAAAC
1 TAAACCCTAAAACCTAAAC
2692935 CTTATCACAT
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:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAAACCTAAACTT
Found at i:2695855 original size:2 final size:2
Alignment explanation
Indices: 2695850--2695887 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2695840 TATTTATTAC
2695850 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
2695888 GAAATGGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2696817 original size:139 final size:137
Alignment explanation
Indices: 2696565--2697096 Score: 619
Period size: 139 Copynumber: 3.9 Consensus size: 137
2696555 TGGAAACAAG
*
2696565 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-ATCGGATGAGTTCTTCTCAT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CCTTCATCGGATGAGTTTTTCTCAT
* * * * **
2696629 TATGAACTCTTCACTGGAAAGGTTGATCCCTCGAGTGAGGCGTTGCTGATTCAACTCTATATGTG
65 TATGAACTC-TCATTTGAAATGTTGATCCATCGAGTGAGGCGTCACTGATTCAACTC-ATATGTG
2696694 ATGAATAAAT
128 ATGAATAAAT
* *
2696704 CTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTATTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTTTTCTCATT
* * *
2696769 ATGAACTCTCAATTAGAAATGTTGATCCATCGAGTGAGGTGTTACTGATTCAACTCCATATGTGA
66 ATGAACTCTC-ATTTGAAATGTTGATCCATCGAGTGAGGCGTCACTGATTCAACT-CATATGTGA
* *
2696834 TGAATCAAG
129 TGAATAAAT
* * * *
2696843 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTTTCCCTCATCGGATGAGTTTTTTTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTTTTCTCATT
* * *
2696908 ATGAACTCTCCATTTGAAATGTTGATCCCTCAAGTGAGGAGTCACTGATTCAA---A-ATGTTG-
66 ATGAACTCT-CATTTGAAATGTTGATCCATCGAGTGAGGCGTCACTGATTCAACTCATATG-TGA
* *
2696968 CGAATCAAGT
129 TGAAT-AAAT
* * * * * * * *
2696978 -GATAGGTCGAACAAGCTCTTTTCATTTTGAACTTCTTATCCTTCTGTCGGATAAGTTTTTCTCA
1 CTA-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTC-ATCGGATGAGTTTTTCTCA
* *
2697042 TTATGAACTCTCTATTTGAAATGTTGATCCATCCAGCGAGGCGTCACTGATTCAA
64 TTATGAACTCTC-ATTTGAAATGTTGATCCATCGAGTGAGGCGTCACTGATTCAA
2697097 AATGTCGTTA
Statistics
Matches: 344, Mismatches: 40, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
134 8 0.02
135 39 0.11
136 65 0.19
138 6 0.02
139 224 0.65
140 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (137 bp):
CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTTTTCTCATT
ATGAACTCTCATTTGAAATGTTGATCCATCGAGTGAGGCGTCACTGATTCAACTCATATGTGATG
AATAAAT
Found at i:2697306 original size:20 final size:20
Alignment explanation
Indices: 2697281--2697335 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
2697271 AAAACATCCT
2697281 GCCCGAAAGTCTTATAGATG
1 GCCCGAAAGTCTTATAGATG
2697301 GCCCGAAAGTCTTATAGATG
1 GCCCGAAAGTCTTATAGATG
* *
2697321 CCCCGAAAGACTTAT
1 GCCCGAAAGTCTTAT
2697336 CATCTTGCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (20 bp):
GCCCGAAAGTCTTATAGATG
Found at i:2699610 original size:8 final size:8
Alignment explanation
Indices: 2699597--2699707 Score: 75
Period size: 8 Copynumber: 14.0 Consensus size: 8
2699587 TTATTTGTTC
2699597 TCTTTTTT
1 TCTTTTTT
2699605 TCTTTTTT
1 TCTTTTTT
*
2699613 TTTTTTTT
1 TCTTTTTT
2699621 TCTCTTTTT
1 TCT-TTTTT
*
2699630 TATTTTTT
1 TCTTTTTT
*
2699638 TATTTTTT
1 TCTTTTTT
* *
2699646 TCTATTTA
1 TCTTTTTT
2699654 T-TTTTTT
1 TCTTTTTT
*
2699661 TC-CTTTT
1 TCTTTTTT
**
2699668 AATTTTTT
1 TCTTTTTT
2699676 TCTGTTTTT
1 TCT-TTTTT
* *
2699685 CCTTTCTT
1 TCTTTTTT
**
2699693 T-TTTTCC
1 TCTTTTTT
2699700 TCTTTTTT
1 TCTTTTTT
2699708 CAAGTTTTTC
Statistics
Matches: 76, Mismatches: 22, Indels: 10
0.70 0.20 0.09
Matches are distributed among these distances:
7 13 0.17
8 49 0.64
9 14 0.18
ACGTcount: A:0.05, C:0.13, G:0.01, T:0.81
Consensus pattern (8 bp):
TCTTTTTT
Found at i:2699613 original size:9 final size:9
Alignment explanation
Indices: 2699594--2699740 Score: 59
Period size: 9 Copynumber: 15.8 Consensus size: 9
2699584 TACTTATTTG
2699594 TTCTCTTTTT
1 TTCT-TTTTT
2699604 TTCTTTTTT
1 TTCTTTTTT
2699613 TT-TTTTTT
1 TTCTTTTTT
2699621 TCTCTTTTTT
1 T-TCTTTTTT
2699631 ATT-TTTTTAT
1 -TTCTTTTT-T
2699641 TT-TTTTCTAT
1 TTCTTTT-T-T
*
2699651 TTATTTTTT
1 TTCTTTTTT
* *
2699660 TTCCTTTTA
1 TTCTTTTTT
*
2699669 AT-TTTTTT
1 TTCTTTTTT
* *
2699677 CTGTTTTTCCT
1 TTCTTTTT--T
2699688 TTCTTTTTT
1 TTCTTTTTT
* *
2699697 TCCTCTTTT
1 TTCTTTTTT
***
2699706 TTCAAGTTT
1 TTCTTTTTT
** *
2699715 TTCTGGTAT
1 TTCTTTTTT
2699724 TTCTTTTTTT
1 TTC-TTTTTT
2699734 TTCTTTT
1 TTCTTTT
2699741 CAATATTTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
8 12 0.11
9 58 0.55
10 24 0.23
11 12 0.11
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.78
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:2699618 original size:16 final size:16
Alignment explanation
Indices: 2699587--2699684 Score: 74
Period size: 16 Copynumber: 6.1 Consensus size: 16
2699577 GTTTTCTTAC
*
2699587 TTATTTGTTCTCTTTTT
1 TTATTT-TTTTCTTTTT
* *
2699604 TTCTTTTTTTTTTTTT
1 TTATTTTTTTCTTTTT
* *
2699620 TTCTCTTTTTTATTTTT
1 TTAT-TTTTTTCTTTTT
*
2699637 TTATTTTTTTCTATTT
1 TTATTTTTTTCTTTTT
* *
2699653 AT-TTTTTTTC-CTTT
1 TTATTTTTTTCTTTTT
*
2699667 TAATTTTTTTCTGTTTT
1 TTATTTTTTTCT-TTTT
2699684 T
1 T
2699685 CCTTTCTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
14 3 0.05
15 16 0.25
16 23 0.35
17 23 0.35
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (16 bp):
TTATTTTTTTCTTTTT
Found at i:2699635 original size:23 final size:21
Alignment explanation
Indices: 2699599--2699661 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
2699589 ATTTGTTCTC
2699599 TTTTTTTCT-TTT-TTTTTTT
1 TTTTTTTCTATTTATTTTTTT
2699618 TTTTCTCTT-T-TTTATTTTTTT
1 TTTT-T-TTCTATTTATTTTTTT
2699639 ATTTTTTTCTATTTATTTTTTT
1 -TTTTTTTCTATTTATTTTTTT
2699661 T
1 T
2699662 CCTTTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
19 4 0.11
20 7 0.18
21 12 0.32
22 15 0.39
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTTTTCTATTTATTTTTTT
Found at i:2699635 original size:25 final size:24
Alignment explanation
Indices: 2699594--2699661 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 24
2699584 TACTTATTTG
*
2699594 TTCTCTTTTTTTCTTTTTTTTTTTTT
1 TTCTC-TTTTTT-TTTTTTTATTTTT
2699620 TTCTCTTTTTTATTTTTTTATTTTT
1 TTCTCTTTTTT-TTTTTTTATTTTT
* *
2699645 TTCTATTTATTTTTTTT
1 TTCTCTTTTTTTTTTTT
2699662 CCTTTTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 6 0.16
25 27 0.71
26 5 0.13
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (24 bp):
TTCTCTTTTTTTTTTTTTATTTTT
Found at i:2699676 original size:1 final size:1
Alignment explanation
Indices: 2699599--2699661 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
2699589 ATTTGTTCTC
* * * * * * * *
2699599 TTTTTTTCTTTTTTTTTTTTTTTCTCTTTTTTATTTTTTTATTTTTTTCTATTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2699662 CCTTTTAATT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:2699696 original size:38 final size:39
Alignment explanation
Indices: 2699611--2699706 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 39
2699601 TTTTTCTTTT
* *
2699611 TTTTTTTTTTTCTCTTTTTTATTTTTTTATTTTTTTCTA
1 TTTTTTTTTTTCTCTTTTTAATTTTTTTATTTTTTCCTA
*
2699650 TTTATTTTTTTTC-C-TTTTAATTTTTTTCTGTTTTTCCT-
1 TTT-TTTTTTTTCTCTTTTTAATTTTTTTAT-TTTTTCCTA
* *
2699688 TTCTTTTTTTCCTCTTTTT
1 TTTTTTTTTTTCTCTTTTT
2699707 TCAAGTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
37 8 0.17
38 16 0.33
39 15 0.31
40 9 0.19
ACGTcount: A:0.06, C:0.12, G:0.01, T:0.80
Consensus pattern (39 bp):
TTTTTTTTTTTCTCTTTTTAATTTTTTTATTTTTTCCTA
Found at i:2699706 original size:23 final size:21
Alignment explanation
Indices: 2699587--2699708 Score: 53
Period size: 21 Copynumber: 5.9 Consensus size: 21
2699577 GTTTTCTTAC
* *
2699587 TTATTTGTTCTCTTTTTTTCTT
1 TTATTT-TTTTCTTTTTTCCTT
* *
2699609 TT-TTTTTTT-TTTTCTCTTTT
1 TTATTTTTTTCTTTTTTC-CTT
*
2699629 TTATTTTTTT-ATTTTT--TT
1 TTATTTTTTTCTTTTTTCCTT
* *
2699647 CTA-TTTATT-TTTTTTCCTTT
1 TTATTTTTTTCTTTTTTCC-TT
*
2699667 TAATTTTTTTCTGTTTTTCCTT
1 TTATTTTTTTCT-TTTTTCCTT
2699689 TCT-TTTTTTCCTCTTTTTTC
1 T-TATTTTTT--TCTTTTTTC
2699709 AAGTTTTTCT
Statistics
Matches: 76, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
17 10 0.13
18 4 0.05
19 5 0.07
20 10 0.13
21 19 0.25
22 12 0.16
23 13 0.17
24 3 0.04
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.80
Consensus pattern (21 bp):
TTATTTTTTTCTTTTTTCCTT
Found at i:2704812 original size:20 final size:20
Alignment explanation
Indices: 2704787--2704850 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
2704777 GGTTAGACCA
* *
2704787 GTTTCGACCTGTTTGAATCG
1 GTTTCGACCTGTTCGAACCG
2704807 GTTTCGACCTGTTCGAACCG
1 GTTTCGACCTGTTCGAACCG
2704827 GTTTCGACCTGTTCGAACCG
1 GTTTCGACCTGTTCGAACCG
2704847 GTTT
1 GTTT
2704851 GACAGGTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTTCGACCTGTTCGAACCG
Found at i:2705945 original size:34 final size:34
Alignment explanation
Indices: 2705907--2705980 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
2705897 CAGGAACCTA
2705907 GTCTGGATCGGGTCAGGT-ATTGGGTAAGATCCAG
1 GTCTGGATCGGGTCAGGTCA-TGGGTAAGATCCAG
* *
2705941 GTCTGGATCGGGTCGGGTCATGGGTAAGATCCGG
1 GTCTGGATCGGGTCAGGTCATGGGTAAGATCCAG
2705975 GTCTGG
1 GTCTGG
2705981 CCTGCTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.26
Consensus pattern (34 bp):
GTCTGGATCGGGTCAGGTCATGGGTAAGATCCAG
Found at i:2706793 original size:21 final size:21
Alignment explanation
Indices: 2706767--2706826 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
2706757 TTAGGAGCGT
2706767 AGGTGTATCGGTACACTCTCA
1 AGGTGTATCGGTACACTCTCA
2706788 AGGTGTATCGGTACACTCTCA
1 AGGTGTATCGGTACACTCTCA
*
2706809 AGGTGTATCGTTACACTC
1 AGGTGTATCGGTACACTC
2706827 AGTGTAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
AGGTGTATCGGTACACTCTCA
Found at i:2707637 original size:2 final size:2
Alignment explanation
Indices: 2707630--2707654 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2707620 AACCAACATC
2707630 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 A
2707655 AACACTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2709191 original size:12 final size:12
Alignment explanation
Indices: 2709176--2709201 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2709166 GTGGAATAGA
2709176 AGGTTGGTTTTG
1 AGGTTGGTTTTG
2709188 AGGTTGGTTTTG
1 AGGTTGGTTTTG
2709200 AG
1 AG
2709202 ACCGACTAGA
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:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (12 bp):
AGGTTGGTTTTG
Found at i:2709381 original size:12 final size:13
Alignment explanation
Indices: 2709364--2709396 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2709354 ATGGGCAAAA
*
2709364 TTTGAAAACTAT-
1 TTTGAAAACAATG
2709376 TTTGAAAACAATG
1 TTTGAAAACAATG
2709389 TTTGAAAA
1 TTTGAAAA
2709397 ATCATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:2709967 original size:14 final size:14
Alignment explanation
Indices: 2709948--2709974 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2709938 CATAGTGAGG
2709948 ATGTATCGATACAT
1 ATGTATCGATACAT
2709962 ATGTATCGATACA
1 ATGTATCGATACA
2709975 CTGTGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:2714304 original size:18 final size:17
Alignment explanation
Indices: 2714281--2714314 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2714271 CTCCAACGTT
*
2714281 CTTCTTTTTCTCTGTCAC
1 CTTCTTTATCTC-GTCAC
2714299 CTTCTTTATCTCGTCA
1 CTTCTTTATCTCGTCA
2714315 TTTGTTTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.32, G:0.06, T:0.53
Consensus pattern (17 bp):
CTTCTTTATCTCGTCAC
Found at i:2716290 original size:42 final size:42
Alignment explanation
Indices: 2716211--2716290 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
2716201 AGTCATGGTG
* * *
2716211 ATGCTGATCAAACTCCTTATGTGAGGGACTAGAAAAATGATT
1 ATGCTAATCAAACTCCTTATGTAAGGGACGAGAAAAATGATT
* * *
2716253 ATGCTAATCCAACTCCTTATGTAATGGACGAGCAAAAT
1 ATGCTAATCAAACTCCTTATGTAAGGGACGAGAAAAAT
2716291 TCGATGATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCTAATCAAACTCCTTATGTAAGGGACGAGAAAAATGATT
Found at i:2724794 original size:28 final size:28
Alignment explanation
Indices: 2724731--2724796 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
2724721 AACTTTAAAG
* *
2724731 TGACAATCAAGATTTAGGTTCAATCAGG
1 TGACAATCAAGATTTAGGCTCAATCAGA
*
2724759 TGTCAATCAAGATTTAGGCTCAATCAGA
1 TGACAATCAAGATTTAGGCTCAATCAGA
*
2724787 TGAGAATCAA
1 TGACAATCAA
2724797 AGTGAATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (28 bp):
TGACAATCAAGATTTAGGCTCAATCAGA
Found at i:2735727 original size:18 final size:18
Alignment explanation
Indices: 2735689--2735746 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
2735679 ATTTGAACTA
*
2735689 AAATATCTAAAA--TAATA
1 AAAT-TCTAAAACCTAATT
*
2735706 AAATTCTAAATCCTAATT
1 AAATTCTAAAACCTAATT
* *
2735724 AAATACTAAAACCTATTT
1 AAATTCTAAAACCTAATT
2735742 AAATT
1 AAATT
2735747 AAAATACCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
18 23 0.70
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTCTAAAACCTAATT
Found at i:2735769 original size:25 final size:23
Alignment explanation
Indices: 2735720--2735769 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 23
2735710 TCTAAATCCT
** *
2735720 AATTAAATACTAAAACCTATTTA
1 AATTAAATACTAAAACAAATATA
2735743 AATTAAAATACCTAAAACAAATATA
1 AATT-AAATA-CTAAAACAAATATA
2735768 AA
1 AA
2735770 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 5 0.23
25 13 0.59
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (23 bp):
AATTAAATACTAAAACAAATATA
Found at i:2735771 original size:20 final size:17
Alignment explanation
Indices: 2735742--2735783 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
2735732 AAACCTATTT
2735742 AAAT-TAAAATACCTAAAA
1 AAATATAAAATA--TAAAA
2735760 CAAATATAAAATATAAAA
1 -AAATATAAAATATAAAA
2735778 AAATAT
1 AAATAT
2735784 CCTAAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 4 0.18
20 7 0.32
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATATAAAATATAAAA
Found at i:2735781 original size:30 final size:32
Alignment explanation
Indices: 2735747--2735810 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
2735737 TATTTAAATT
2735747 AAAATA-CCTAAAAC-AAATATAAAATA-TAAA
1 AAAATATCCTAAAACTAAAT-TAAAATACTAAA
*
2735777 AAAATATCCTAAAACTTAATTAAAATACTAAA
1 AAAATATCCTAAAACTAAATTAAAATACTAAA
2735809 AA
1 AA
2735811 CCTATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 6 0.20
31 15 0.50
32 9 0.30
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (32 bp):
AAAATATCCTAAAACTAAATTAAAATACTAAA
Found at i:2742357 original size:21 final size:21
Alignment explanation
Indices: 2742292--2742357 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
2742282 GCTTTGGAAT
**
2742292 TTTTCCTGGGATGTAAATAGC
1 TTTTCCTGGGATGTAACCAGC
* *
2742313 TTGTCCTGGGACGTAACCAGC
1 TTTTCCTGGGATGTAACCAGC
*
2742334 TTTTCTTGGGATGTAACCAGC
1 TTTTCCTGGGATGTAACCAGC
2742355 TTT
1 TTT
2742358 CTTTTGAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (21 bp):
TTTTCCTGGGATGTAACCAGC
Found at i:2743661 original size:22 final size:24
Alignment explanation
Indices: 2743636--2743688 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
2743626 TTTAAATTAT
*
2743636 TTAAAGAGATAAAA-AGATAA-GA
1 TTAAAGAAATAAAAGAGATAAGGA
2743658 TTAAA-AAATAAAAGAGATAAGGA
1 TTAAAGAAATAAAAGAGATAAGGA
2743681 -TAAAGAAA
1 TTAAAGAAA
2743689 ACTTATAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 7 0.26
22 15 0.56
23 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (24 bp):
TTAAAGAAATAAAAGAGATAAGGA
Found at i:2747670 original size:20 final size:21
Alignment explanation
Indices: 2747625--2747670 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
2747615 AAATTCATTG
2747625 AAATAATTTTTATCTTTCTTT
1 AAATAATTTTTATCTTTCTTT
*
2747646 -TATAA-TTTT-TCTTCTCTTT
1 AAATAATTTTTATCTT-TCTTT
2747665 AAATAA
1 AAATAA
2747671 AATTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATAATTTTTATCTTTCTTT
Found at i:2748965 original size:183 final size:183
Alignment explanation
Indices: 2748270--2749114 Score: 1297
Period size: 183 Copynumber: 4.6 Consensus size: 183
2748260 TTGTCGATAT
* * *
2748270 GTATCGATACCATTA-AAATATGTATCGATACATAACAATATATCAGGTAAAAATATGACAAAAC
1 GTATCGATA-CTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAAC
* ** * *
2748334 CGGTTTCATTATGACAAAACTGGTAAAGTGCTACCGTATATGTTGAATGTATCAATTACATTCAA
65 CGGTTTCATTATGACAAAACCGGTAAAGCACTACCGGATATGTTGAATGTATCAATTTCATTCAA
*
2748399 ATAAGTATCGATACTTTTGGAATTTAAAAGAAAA--AATAATAGCACCTATAAA
130 ATAAGTATCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
* * * *
2748451 GTATCGATACTTTATAAATAGGTATCGATACGTAACAATATAACAGGTAAAAATATGACAAAATC
1 GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * * **
2748516 GATTTCATTATGACAAAATCGATAAAGCACTACCGGATATGTTGAATGTATTGATTTCATTCAAA
66 GGTTTCATTATGACAAAACCGGTAAAGCACTACCGGATATGTTGAATGTATCAATTTCATTCAAA
*
2748581 TAAGT-GCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
131 TAAGTATCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
* * * * *
2748633 GTGTCGATACTTTATAAACATGTATCGATACGTAACAATATAATAGATAAAAA-ATGACAAAACT
1 GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * * *
2748697 GGTTTCATTATGACAAAACTGGTAAAGCGCTACCGGATATGTAGAATGTATCAATTCCATTCAAA
66 GGTTTCATTATGACAAAACCGGTAAAGCACTACCGGATATGTTGAATGTATCAATTTCATTCAAA
*
2748762 TAAGTATCGATACTTTTGGAATTTAAAAGAAAAGCACTAATAGCGCCTATAAA
131 TAAGTATCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
* * *
2748815 GTATCGATAATTTATAAACATGTATCGATACATAACAATATAACAGGTTAAATTATGACAAAACC
1 GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
*
2748880 GGTTTCATTATGACAAAACCGGTAAATCACTACCGGATATGTTGAATGTAT-AGATTTCATTCAA
66 GGTTTCATTATGACAAAACCGGTAAAGCACTACCGGATATGTTGAATGTATCA-ATTTCATTCAA
* *
2748944 ATAAGTATCGATACTTTTGGAATTTAAAAGAAAAGAAATAATAGTGCCTATAAA
130 ATAAGTATCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
2748998 GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
1 GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* *
2749063 GGTTTCATTATGACAAAACCGGTAAAGCACTATCGAATATGTTGAATGTATC
66 GGTTTCATTATGACAAAACCGGTAAAGCACTACCGGATATGTTGAATGTATC
2749115 GATACTTTAA
Statistics
Matches: 600, Mismatches: 57, Indels: 11
0.90 0.09 0.02
Matches are distributed among these distances:
180 30 0.05
181 185 0.31
182 157 0.26
183 228 0.38
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (183 bp):
GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
GGTTTCATTATGACAAAACCGGTAAAGCACTACCGGATATGTTGAATGTATCAATTTCATTCAAA
TAAGTATCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGCCTATAAA
Found at i:2756377 original size:199 final size:201
Alignment explanation
Indices: 2756026--2756490 Score: 690
Period size: 200 Copynumber: 2.3 Consensus size: 201
2756016 TGAGGTATCA
2756026 ATACATTTATTATAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAAGTAAA
1 ATACATTTATTATAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAAGTAAA
* *
2756091 TTTACAATATAACCAGTAAAAAATATACCAGTTAAATGAGAGAATAGGTAAACATAATGTATCGA
66 TTTACAATATAACCAGTAAAAAATATACCAGTTAAATGAGAGAATAAGTAAACATAATGTATCAA
* *
2756156 TACTTTTTAAAATTGTATCGATA-TTTTTATCCATAATGAATGTCC-AACGACG-TGCACACATA
131 TACTTTTTAAAATTGTATCGATACTTTTTATCCAGAATGAATG-CCAAAC-AAGATGCACACATA
2756218 AAGTGTCG
194 AAGTGTCG
* * ** *
2756226 ATACATTTATCATAAGTATCAATCCCAAAAACATTGAAACCAATAATTATAAAGTAATAAGTAAA
1 ATACATTTATTATAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAAGTAAA
* * **
2756291 TTTACAATGTAACC-GCT-AAGAATATACCAGTTTTATGAGAGAATAAGTAAACATAATGTATCA
66 TTTACAATATAACCAG-TAAAAAATATACCAGTTAAATGAGAGAATAAGTAAACATAATGTATCA
* *
2756354 ATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACAAGATGCACGCATAA
130 ATACTTTTTAAAATTGTATCGATACTTTTTATCCAGAATGAATGCCAAACAAGATGCACACATAA
2756419 AGTGTCG
195 AGTGTCG
* * *
2756426 ATACATTTATTGTAAGTATCGATCCTC-AAAACATCAAAACCGATTATTATAAAGTAATAGGTAA
1 ATACATTTATTATAAGTATCGATCC-CAAAAACATCAAAACCGATAATTATAAAGTAATAAGTAA
2756490 A
65 A
2756491 ATATATCGGT
Statistics
Matches: 237, Mismatches: 23, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
199 70 0.30
200 166 0.70
201 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (201 bp):
ATACATTTATTATAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAAGTAAA
TTTACAATATAACCAGTAAAAAATATACCAGTTAAATGAGAGAATAAGTAAACATAATGTATCAA
TACTTTTTAAAATTGTATCGATACTTTTTATCCAGAATGAATGCCAAACAAGATGCACACATAAA
GTGTCG
Found at i:2756627 original size:179 final size:180
Alignment explanation
Indices: 2756311--2756670 Score: 546
Period size: 179 Copynumber: 2.0 Consensus size: 180
2756301 AACCGCTAAG
* *
2756311 AATATACCAGTTTTATGAGAGAATAAGTAAACATAATGTATCAATACTTTTTAAAATTGTATCGA
1 AATATACCAGTTTAATGAGAGAATAAGTAAACATAATGTATCAATACTTTTTAAAATTATATCGA
* **
2756376 TACTTTTTGTCCAGAATGAATGCCAAACAAGATGCACGCATAAAGTGTCGATACATTTATTGTAA
66 TACTTTTTGTCCAGAATGAATGCCAAACAAGATACACGCATAAAGTGTCGATACATTTATCATAA
* *
2756441 GTATCGAT-CCTCAAAACATCAAAACCGATTATTATAAAGTAATAGGTAA
131 CTATCGATCCCTCAAAACATCAAAACCGATAATTATAAAGTAATAGGTAA
* * *
2756490 AATATATCGGTTTAATGAGAGAATAAGTAAACATAATGTATCGATACTTTTTAAAATTATATCGA
1 AATATACCAGTTTAATGAGAGAATAAGTAAACATAATGTATCAATACTTTTTAAAATTATATCGA
*
2756555 TACTTTTTGTCCAGAATGAATGTCC-AACGACG-TACACGCATAAAGTGTCGATACATTTATCAT
66 TACTTTTTGTCCAGAATGAATG-CCAAAC-AAGATACACGCATAAAGTGTCGATACATTTATCAT
* * * *
2756618 AACTATCGATCCCTTAAAACATCGAAACTGATAATTATTAAGTAATAGGTAA
129 AACTATCGATCCCTCAAAACATCAAAACCGATAATTATAAAGTAATAGGTAA
2756670 A
1 A
2756671 TTTACAATGT
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
179 122 0.75
180 41 0.25
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (180 bp):
AATATACCAGTTTAATGAGAGAATAAGTAAACATAATGTATCAATACTTTTTAAAATTATATCGA
TACTTTTTGTCCAGAATGAATGCCAAACAAGATACACGCATAAAGTGTCGATACATTTATCATAA
CTATCGATCCCTCAAAACATCAAAACCGATAATTATAAAGTAATAGGTAA
Found at i:2756749 original size:179 final size:178
Alignment explanation
Indices: 2756368--2757080 Score: 739
Period size: 179 Copynumber: 4.1 Consensus size: 178
2756358 TTTTTAAAAT
* *
2756368 TGTATCGATACTTTTTGTCCAGAATGAATGCCAAACAAGATGCACGCATAAAGTGTCGATACATT
1 TGTATCGATACTTTTTGTCCAGAATGAATGCC-AACGAGGTGCACGCATAAAGTGTCGATACATT
** * * *
2756433 TATTGTAAGTATCGATCCTC-AAAACATCAAAACCGATTATTATAAAGTAATAGGTAAAATATAT
65 TATCATAAGTATCGATCC-CAAAAACATCGAAACCGATAATTATAAAGTAATAGGT-AAATTTAT
** * * * * **** * * * * ***
2756497 CGGTTTAA-TGAGAGAATAAGTAAACATAATGTAT-CGATACTTTTTAAA-AT--
128 -AATGTAACCGATA-AA-AA-TATACCGGTTTTATGAGAGAATAGGTAAACATAA
* * *
2756547 TATATCGATACTTTTTGTCCAGAATGAATGTCCAACGACGTACACGCATAAAGTGTCGATACATT
1 TGTATCGATACTTTTTGTCCAGAATGAATG-CCAACGAGGTGCACGCATAAAGTGTCGATACATT
* * * * *
2756612 TATCATAACTATCGATCCCTTAAAACATCGAAACTGATAATTATTAAGTAATAGGTAAATTTACA
65 TATCATAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTATA
* * * * *
2756677 ATGTAACCGATAAGAATATATCGATTTTATGAGATAATAGGTAAACATAT
129 ATGTAACCGATAAAAATATACCGGTTTTATGAGAGAATAGGTAAACATAA
* *
2756727 TGTATCGATAC-TTTTATCCAGAATGAATGCCTAACGAGGTGCACACATAAAGTGTCG-------
1 TGTATCGATACTTTTTGTCCAGAATGAATGCC-AACGAGGTGCACGCATAAAGTGTCGATACATT
* *
2756784 ----AT--GTATCGATCCCAAAAATATCGAAACCAATAATTATAAAGTAATAGGTAAATTTATAA
65 TATCATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTATAA
* *
2756843 TGTAACCGGTAAAAATATACCGGTTTTATGAGAGAATAGGTAAATATAA
130 TGTAACCGATAAAAATATACCGGTTTTATGAGAGAATAGGTAAACATAA
*
2756892 TGTATCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCAATACATT
1 TGTATCGATACTTTTTGTCCAGAATGAATG-CCAACGAGGTGCACGCATAAAGTGTCGATACATT
* *
2756957 TATCATAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATATGTAAATTTATAA
65 TATCATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTATAA
* *
2757022 TGTAA-CTAGTAAAAATATACCGGTTTTATAAGAGAATAGGTAAACATAA
130 TGTAACCGA-TAAAAATATACCGGTTTTATGAGAGAATAGGTAAACATAA
2757071 TGTATCGATA
1 TGTATCGATA
2757081 AGTTTTTAAA
Statistics
Matches: 448, Mismatches: 61, Indels: 50
0.80 0.11 0.09
Matches are distributed among these distances:
165 93 0.21
166 50 0.11
167 2 0.00
168 2 0.00
176 8 0.02
177 13 0.03
178 11 0.02
179 226 0.50
180 43 0.10
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (178 bp):
TGTATCGATACTTTTTGTCCAGAATGAATGCCAACGAGGTGCACGCATAAAGTGTCGATACATTT
ATCATAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGTAAATTTATAAT
GTAACCGATAAAAATATACCGGTTTTATGAGAGAATAGGTAAACATAA
Found at i:2757097 original size:21 final size:22
Alignment explanation
Indices: 2757071--2757114 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2757061 GTAAACATAA
2757071 TGTATCGATAAGTTT-TTAAAT
1 TGTATCGATAAGTTTCTTAAAT
*
2757092 TGTATCGATATGTTTCTTAAAT
1 TGTATCGATAAGTTTCTTAAAT
2757114 T
1 T
2757115 ACACGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (22 bp):
TGTATCGATAAGTTTCTTAAAT
Found at i:2757428 original size:18 final size:18
Alignment explanation
Indices: 2757407--2757475 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
2757397 TAAACGACAA
2757407 TCTTCTTCTCAACCAAGC
1 TCTTCTTCTCAACCAAGC
*
2757425 TCTTCTTTTCAACAACAA-C
1 TCTTCTTCTCAAC--CAAGC
*
2757444 -CTTTTTCTCAACCAAGC
1 TCTTCTTCTCAACCAAGC
2757461 TCTTCTTCT-AACCAA
1 TCTTCTTCTCAACCAA
2757476 ATCAGGTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 3 0.07
17 7 0.16
18 29 0.67
19 1 0.02
20 3 0.07
ACGTcount: A:0.26, C:0.35, G:0.03, T:0.36
Consensus pattern (18 bp):
TCTTCTTCTCAACCAAGC
Found at i:2760505 original size:24 final size:23
Alignment explanation
Indices: 2760474--2760518 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
2760464 TTCATTTCAT
2760474 ATTTAATTGGAGTTTGAATTTAA
1 ATTTAATTGGAGTTTGAATTTAA
*
2760497 ATTTCAATTTGAGTTTGAATTT
1 ATTT-AATTGGAGTTTGAATTT
2760519 CAATATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (23 bp):
ATTTAATTGGAGTTTGAATTTAA
Found at i:2760507 original size:18 final size:18
Alignment explanation
Indices: 2760486--2760522 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2760476 TTAATTGGAG
2760486 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2760504 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2760522 T
1 T
2760523 ATAAATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2760529 original size:24 final size:24
Alignment explanation
Indices: 2760478--2760530 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2760468 TTTCATATTT
* * *
2760478 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
2760502 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
2760526 AATTT
1 AATTT
2760531 CAGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2762877 original size:21 final size:21
Alignment explanation
Indices: 2762852--2762891 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2762842 AGTTTATATA
*
2762852 ATGTATTGATATTTTTTGTAT
1 ATGTATTGATACTTTTTGTAT
2762873 ATGTATTGATACTTTTTGT
1 ATGTATTGATACTTTTTGT
2762892 CCAGTATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (21 bp):
ATGTATTGATACTTTTTGTAT
Found at i:2762944 original size:202 final size:202
Alignment explanation
Indices: 2762618--2763031 Score: 652
Period size: 202 Copynumber: 2.0 Consensus size: 202
2762608 CTATAAAAAT
*
2762618 ATACCGGTTTAATGGTAACATAATTTTATATAAAGTACCTATACTTTTTTTATATCTATCGATAC
1 ATACCGGTTTAATGGTAACATAAGTTTATATAAAGTACCTATACTTTTTTTATATCTATCGATAC
*
2762683 TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATACCTATAAAAATATA
66 TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTATAAAAATATA
* * * *
2762748 TCGATACATAATGATATAAAAGGTTCAAAATTGATAAAATCGGTTTCAATATACAATGTAATCGG
131 TCGATACATAATAATATAAAAGGTTAAAAATTGATAAAATCGGTTTCAATATACAATGTAACCAG
2762813 TCAATAG
196 TCAATAG
* * * * * *
2762820 ATACCAGTTTAATGGTAATATAAGTTTATATAATGTA-TTGATA-TTTTTTGTATATGTATTGAT
1 ATACCGGTTTAATGGTAACATAAGTTTATATAAAGTACCT-ATACTTTTTT-TATATCTATCGAT
*
2762883 ACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTATAAAAATG
64 ACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTATAAAAATA
* *
2762948 TATCGATATATAATAATATAAAATGTTAAAAATTGATAAAATCGGTTTCAATATACAATGTAACC
129 TATCGATACATAATAATATAAAAGGTTAAAAATTGATAAAATCGGTTTCAATATACAATGTAACC
*
2763013 ATTCAATAG
194 AGTCAATAG
2763022 ATACCGGTTT
1 ATACCGGTTT
2763032 TGAAAAAAAT
Statistics
Matches: 193, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
201 7 0.04
202 186 0.96
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (202 bp):
ATACCGGTTTAATGGTAACATAAGTTTATATAAAGTACCTATACTTTTTTTATATCTATCGATAC
TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTATAAAAATATA
TCGATACATAATAATATAAAAGGTTAAAAATTGATAAAATCGGTTTCAATATACAATGTAACCAG
TCAATAG
Found at i:2763089 original size:202 final size:201
Alignment explanation
Indices: 2762674--2763090 Score: 507
Period size: 202 Copynumber: 2.1 Consensus size: 201
2762664 TTTTTATATC
*
2762674 TATCGATACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATACCTAT
1 TATCGATACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTAT
* *
2762739 AAAAATATATCGATACATAATGATATAAAAGGTTCAAAATTGATAAAATCGGTTTCAATATACAA
66 AAAAATATATCGATACATAATAATATAAAAGGTTAAAAATTGATAAAATCGGTTTCAATATACAA
* * ** * * * * * * * ** **
2762804 TGTAATCGGTCAATAGATACCAGTTTAATGGTAATATAAGTTTATATAATGTATTGATATTTTTT
131 TGTAACCAGTCAATAGATACCAGTTT-ATGAAAAAATAAATTCATACAAAGTATCGAAACCTTAC
** **
2762869 GTATATG
195 ACATAAA
*
2762876 TATTGATACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTAT
1 TATCGATACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTAT
* * *
2762941 AAAAATGTATCGATATATAATAATATAAAATGTTAAAAATTGATAAAATCGGTTTCAATATACAA
66 AAAAATATATCGATACATAATAATATAAAAGGTTAAAAATTGATAAAATCGGTTTCAATATACAA
* *
2763006 TGTAACCATTCAATAGATACCGGTTT-TGAAAAAAATGAAATGTCA-ACAAAGTATCGAAACCTT
131 TGTAACCAGTCAATAGATACCAGTTTATG-AAAAAAT-AAAT-TCATACAAAGTATCGAAACCTT
2763069 ACACA-ACAA
193 ACACATA-AA
*
2763078 TATCAATACTTTT
1 TATCGATACTTTT
2763091 GTAAGAGTAT
Statistics
Matches: 181, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
200 2 0.01
201 5 0.03
202 172 0.95
203 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (201 bp):
TATCGATACTTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATCGATAACTAT
AAAAATATATCGATACATAATAATATAAAAGGTTAAAAATTGATAAAATCGGTTTCAATATACAA
TGTAACCAGTCAATAGATACCAGTTTATGAAAAAATAAATTCATACAAAGTATCGAAACCTTACA
CATAAA
Found at i:2764778 original size:20 final size:20
Alignment explanation
Indices: 2764751--2764794 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
2764741 ATCATAAACT
2764751 TTTATATAT-GTATCAATAC
1 TTTATATATCGTATCAATAC
* *
2764770 TTTATTATATCGTCTCGATAC
1 TTTA-TATATCGTATCAATAC
2764791 TTTA
1 TTTA
2764795 ATTCCACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 12 0.57
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTATATATCGTATCAATAC
Found at i:2764840 original size:2 final size:2
Alignment explanation
Indices: 2764833--2764870 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2764823 AAATGTATCG
2764833 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
2764871 TACATACTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2765025 original size:2 final size:2
Alignment explanation
Indices: 2765018--2765060 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2765008 ATACTCACAT
2765018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2765060 T
1 T
2765061 TTCATACTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2767280 original size:2 final size:2
Alignment explanation
Indices: 2767273--2767297 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2767263 CTCCATGCTT
2767273 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 T
2767298 TAGAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2768693 original size:21 final size:20
Alignment explanation
Indices: 2768607--2768764 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
2768597 AAATGACCAA
**
2768607 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
2768626 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
2768646 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
2768666 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
2768687 TAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2768708 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
2768728 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2768749 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2768765 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2768793 original size:20 final size:20
Alignment explanation
Indices: 2768731--2768960 Score: 232
Period size: 20 Copynumber: 11.5 Consensus size: 20
2768721 CGATTTTCCA
* ** *
2768731 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
2768751 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2768771 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2768791 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2768811 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2768831 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2768851 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2768871 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
2768891 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
2768911 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
2768931 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
2768951 AAATCACAAC
1 AAATCGCAAC
2768961 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2769682 original size:24 final size:24
Alignment explanation
Indices: 2769643--2769689 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2769633 AAATTTGGTC
2769643 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2769667 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2769690 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2769881 original size:12 final size:12
Alignment explanation
Indices: 2769864--2769888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2769854 ATATAATCCT
2769864 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2769876 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2769888 G
1 G
2769889 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2772222 original size:33 final size:34
Alignment explanation
Indices: 2772171--2772401 Score: 237
Period size: 33 Copynumber: 6.7 Consensus size: 34
2772161 CGGAAATTAC
*
2772171 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
2772204 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
2772238 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
2772271 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
2772304 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
2772342 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
2772375 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--CG--ATGAAAATCGCAA
2772402 CGAGAGAATC
Statistics
Matches: 171, Mismatches: 9, Indels: 31
0.81 0.04 0.15
Matches are distributed among these distances:
32 1 0.01
33 95 0.56
34 31 0.18
35 7 0.04
36 4 0.02
37 3 0.02
38 30 0.18
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:2772276 original size:19 final size:19
Alignment explanation
Indices: 2772185--2772401 Score: 249
Period size: 19 Copynumber: 12.4 Consensus size: 19
2772175 GCAACGAGAG
2772185 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2772204 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2772218 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2772238 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2772252 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2772271 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2772290 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2772304 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2772323 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2772342 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2772356 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2772375 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2772394 AATCGCAA
1 AATCGCAA
2772402 CGAGAGAATC
Statistics
Matches: 169, Mismatches: 8, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 42 0.25
15 3 0.02
16 7 0.04
17 6 0.04
18 4 0.02
19 94 0.56
20 13 0.08
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2772412 original size:33 final size:33
Alignment explanation
Indices: 2772271--2772423 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
2772261 GCGAAATGAA
2772271 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
2772304 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
2772336 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
2772375 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
2772408 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2772424 TATAAACGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 56 0.57
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:2772439 original size:52 final size:52
Alignment explanation
Indices: 2772213--2772423 Score: 413
Period size: 52 Copynumber: 4.0 Consensus size: 52
2772203 AAATCCCAAC
2772213 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2772266 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2772318 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2772370 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2772422 AT
1 AT
2772424 TATAAACGCA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 142 0.90
53 16 0.10
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:2772542 original size:52 final size:53
Alignment explanation
Indices: 2772430--2772545 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
2772420 AAATTATAAA
2772430 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
2772483 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
2772535 CGCATTGCGAT
1 CGCATTGCGAT
2772546 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:2772553 original size:19 final size:19
Alignment explanation
Indices: 2772448--2772545 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
2772438 GATTCTCTCG
2772448 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2772468 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2772487 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2772501 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2772520 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2772539 TTGCGAT
1 TTGCGAT
2772546 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2772670 original size:14 final size:14
Alignment explanation
Indices: 2772651--2772687 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2772641 CATCAATTAC
2772651 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2772665 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2772679 ACAAATCAA
1 ACAAATCAA
2772688 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2774683 original size:33 final size:33
Alignment explanation
Indices: 2774646--2774738 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2774636 GCGAAACCAA
2774646 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2774679 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2774712 AATCGCAACGCCAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2774739 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2774684 original size:14 final size:14
Alignment explanation
Indices: 2774665--2774721 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
2774655 GCGAAATGAA
2774665 AATCGCAACGAAAG
1 AATCGCAACGAAAG
2774679 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2774696 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2774712 AATCGCAACG
1 AATCGCAACG
2774722 CCAAATGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
16 6 0.16
17 6 0.16
19 8 0.21
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2774703 original size:19 final size:19
Alignment explanation
Indices: 2774609--2774743 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2774599 TAGTTTACTT
* *
2774609 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2774629 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2774648 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2774667 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2774681 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2774700 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2774714 TCGCAACGCCAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2774733 TCGCAATGCGA
1 TCGCAACGCGA
2774744 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 12 0.12
19 46 0.47
20 12 0.12
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2774735 original size:52 final size:52
Alignment explanation
Indices: 2774625--2774743 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 52
2774615 CACGAAACTT
*
2774625 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AAAATCGCAATGCGAAACCAAAATCGCAAC-CGAAATG-AAATCGCAACGAAAG
**
2774679 --AATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-AATCGCAACGCCAAATG
1 AAAATCGCAATGCGAAACCAAAATCGCAACCGAAATGAAATCGCAACG--AAA-G
2774729 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
2774744 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
47 10 0.18
49 4 0.07
50 6 0.11
52 37 0.65
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (52 bp):
AAAATCGCAATGCGAAACCAAAATCGCAACCGAAATGAAATCGCAACGAAAG
Found at i:2774761 original size:19 final size:19
Alignment explanation
Indices: 2774739--2774867 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2774729 AAAATCGCAA
2774739 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2774758 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2774772 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2774791 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2774805 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2774824 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2774843 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2774863 TGCGA
1 TGCGA
2774868 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2774781 original size:33 final size:33
Alignment explanation
Indices: 2774739--2774830 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2774729 AAAATCGCAA
2774739 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2774772 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2774805 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2774831 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2775032 original size:93 final size:93
Alignment explanation
Indices: 2774915--2775290 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
2774905 ATGGATTGCA
2774915 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
2774979 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
2775007 TTACTTTCAACCAAAAGGCAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
2775072 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
2775100 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
2775165 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
2775193 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
2775258 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
2775286 TTACT
1 TTACT
2775291 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 276 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:2777015 original size:14 final size:14
Alignment explanation
Indices: 2776996--2777085 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
2776986 TTGAAATGAA
2776996 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2777010 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
2777029 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2777043 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2777062 AATCGCAACGGGAG
1 AATCGCAACGAGAG
2777076 AATCGCAACG
1 AATCGCAACG
2777086 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 30 0.49
15 1 0.02
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.33
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2777033 original size:33 final size:33
Alignment explanation
Indices: 2776988--2777102 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2776978 TCATTTGGTT
2776988 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2777021 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2777054 GAAATGAAAATCGCAACGGGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2777087 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2777103 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2777034 original size:19 final size:19
Alignment explanation
Indices: 2777010--2777107 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
2777000 GCAACGAGAG
*
2777010 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
2777029 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
2777043 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2777062 AATCGCAACG-G----GAG
1 AATCGCAACGCGAAATGAA
2777076 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2777095 AATCGCAATGCGA
1 AATCGCAACGCGA
2777108 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 22 0.34
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 34 0.53
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:2777138 original size:14 final size:14
Alignment explanation
Indices: 2777119--2777175 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2777109 TTTGGTTTCG
2777119 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2777133 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2777152 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2777166 CGTTGCGATT
1 CGTTGCGATT
2777176 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2777151 original size:33 final size:33
Alignment explanation
Indices: 2777103--2777183 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
2777093 AAAATCGCAA
**
2777103 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2777136 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2777169 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
2777184 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2777186 original size:21 final size:21
Alignment explanation
Indices: 2777160--2777235 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2777150 CGCGTTGCGA
2777160 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
2777181 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
2777201 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
2777222 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
2777236 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2777216 original size:41 final size:41
Alignment explanation
Indices: 2777159--2777236 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
2777149 TCGCGTTGCG
*
2777159 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
2777200 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
2777237 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:2777357 original size:33 final size:33
Alignment explanation
Indices: 2777315--2777385 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2777305 AATACTAACT
*
2777315 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2777348 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2777381 TGAAA
1 TGAAA
2777386 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2777616 original size:22 final size:22
Alignment explanation
Indices: 2777564--2777618 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2777554 TGGTTGTGAG
**
2777564 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2777586 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2777608 GGATTTCTTCG
1 GGATTTCTTCG
2777619 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2777790 original size:20 final size:20
Alignment explanation
Indices: 2777765--2777958 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2777755 CTTTAAATAT
2777765 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2777785 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2777807 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2777826 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2777846 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2777866 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2777886 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2777906 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2777926 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2777946 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2777959 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2777952 original size:60 final size:60
Alignment explanation
Indices: 2777765--2777958 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2777755 CTTTAAATAT
**
2777765 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2777826 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2777886 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2777946 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2777959 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2777975 original size:21 final size:21
Alignment explanation
Indices: 2777945--2778027 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2777935 ATTTTCATAT
*
2777945 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2777966 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2777987 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2778008 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2778028 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2778018 original size:42 final size:43
Alignment explanation
Indices: 2777925--2778023 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2777915 ATTTATGTGT
* *
2777925 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
2777966 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
2778008 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2778024 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:2781439 original size:13 final size:13
Alignment explanation
Indices: 2781423--2781447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2781413 AAAATAAATA
2781423 AATAAAAAATAGG
1 AATAAAAAATAGG
2781436 AATAAAAAATAG
1 AATAAAAAATAG
2781448 TAAAATACTC
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:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AATAAAAAATAGG
Found at i:2783658 original size:69 final size:66
Alignment explanation
Indices: 2783571--2783698 Score: 166
Period size: 69 Copynumber: 1.9 Consensus size: 66
2783561 AAATTGGGAA
* *
2783571 GCCCCTTCCTCGTAAAGTTGAGCCTCGAATGGCACGATATCCTCCGTCGTGGAGTTGAAATCGCG
1 GCCCCTTCATCGTAAAGTTGAGCCTCGAATGG---GATATCCTCCGTCGTGAAGTTGAAATCGCG
2783636 GATG
63 GATG
* * * * *
2783640 GCCCCTTCATCGTGAAGTTGAGCCTTGACTTGGATATCCTTCGTCGTGAAGTTGAAATC
1 GCCCCTTCATCGTAAAGTTGAGCCTCGAATGGGATATCCTCCGTCGTGAAGTTGAAATC
2783699 CAAGTATTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 25 0.48
69 27 0.52
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (66 bp):
GCCCCTTCATCGTAAAGTTGAGCCTCGAATGGGATATCCTCCGTCGTGAAGTTGAAATCGCGGAT
G
Found at i:2789604 original size:21 final size:21
Alignment explanation
Indices: 2789579--2789630 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
2789569 TAGAACCCCA
2789579 GGGGGTATCGATTCTCCTATG
1 GGGGGTATCGATTCTCCTATG
2789600 GGGGGTATCGATTCTCCTATG
1 GGGGGTATCGATTCTCCTATG
2789621 GGGGGTATCG
1 GGGGGTATCG
2789631 GTTCCCCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.17, G:0.38, T:0.31
Consensus pattern (21 bp):
GGGGGTATCGATTCTCCTATG
Done.