Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007964.1 Hibiscus syriacus cultivar Beakdansim tig00110393_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: 1737572
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 6 of 6
Found at i:1392922 original size:21 final size:21
Alignment explanation
Indices: 1392896--1392945 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
1392886 TGATAAAACT
1392896 TTATCATAAAATCTCGAAAGA
1 TTATCATAAAATCTCGAAAGA
1392917 TTATCATAAAATCTCGAAAGA
1 TTATCATAAAATCTCGAAAGA
1392938 TTATCATA
1 TTATCATA
1392946 TCCCAGTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (21 bp):
TTATCATAAAATCTCGAAAGA
Found at i:1400579 original size:14 final size:14
Alignment explanation
Indices: 1400560--1400586 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1400550 CTCACAACCT
1400560 CTAAACCATAAGTC
1 CTAAACCATAAGTC
1400574 CTAAACCATAAGT
1 CTAAACCATAAGT
1400587 TAGGATTTAT
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:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (14 bp):
CTAAACCATAAGTC
Found at i:1400598 original size:14 final size:14
Alignment explanation
Indices: 1400581--1400618 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1400571 GTCCTAAACC
1400581 ATAAGTTAGGATTT
1 ATAAGTTAGGATTT
*
1400595 ATAATTTAGGATTT
1 ATAAGTTAGGATTT
*
1400609 -TAAGTCAGGA
1 ATAAGTTAGGA
1400619 GTAAGATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (14 bp):
ATAAGTTAGGATTT
Found at i:1406402 original size:54 final size:55
Alignment explanation
Indices: 1406319--1406427 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 55
1406309 TGTCATTTCC
* * *
1406319 CGACACCTGAGCATGGAATGACATTCTCTTGCTAAATTAGAATAAGTTAAAGCTT
1 CGACACCTGAGCATGGAATGACATCCTCTTGCTAAATCAGAATAACTTAAAGCTT
* *
1406374 CGACA-CTGAGCATGGAATGACATCCTCTTGCTAAATCCGAATAACTTTAAGCTT
1 CGACACCTGAGCATGGAATGACATCCTCTTGCTAAATCAGAATAACTTAAAGCTT
1406428 AGATCTTACA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (55 bp):
CGACACCTGAGCATGGAATGACATCCTCTTGCTAAATCAGAATAACTTAAAGCTT
Found at i:1410984 original size:16 final size:15
Alignment explanation
Indices: 1410961--1410998 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1410951 TTAGAATGTA
1410961 AATT-TTTTATATTAT
1 AATTATTTTATATT-T
*
1410976 ATTTATTTTATATTT
1 AATTATTTTATATTT
1410991 AATTATTT
1 AATTATTT
1410999 AACCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
AATTATTTTATATTT
Found at i:1412434 original size:14 final size:13
Alignment explanation
Indices: 1412395--1412442 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
1412385 ATAATAAAAG
*
1412395 TTAAATATAAACA
1 TTAAATACAAACA
1412408 TTAAATACAAACA
1 TTAAATACAAACA
*
1412421 TTACAATTCAAACAA
1 TTA-AATACAAAC-A
1412436 TTAAATA
1 TTAAATA
1412443 ATTGTTTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 15 0.50
14 11 0.37
15 4 0.13
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAAATACAAACA
Found at i:1414236 original size:103 final size:103
Alignment explanation
Indices: 1414110--1414317 Score: 407
Period size: 103 Copynumber: 2.0 Consensus size: 103
1414100 CGGGACATAT
1414110 ATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
1 ATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
1414175 ATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGAC
66 ATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGAC
*
1414213 ATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
1 ATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
1414278 ATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGAC
66 ATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGAC
1414316 AT
1 AT
1414318 TGTGGTCCTT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (103 bp):
ATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
ATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGAC
Found at i:1414323 original size:18 final size:18
Alignment explanation
Indices: 1414300--1414335 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1414290 AGGAATGATA
1414300 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
1414318 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
1414336 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:1414411 original size:121 final size:121
Alignment explanation
Indices: 1414197--1414439 Score: 441
Period size: 121 Copynumber: 2.0 Consensus size: 121
1414187 AGGAATGATA
1414197 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
1414262 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAGGGACAT
*
1414318 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* * *
1414383 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTTGTCCTTATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAGGGACAT
1414439 T
1 T
1414440 ATTATATGGC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAGGGACAT
Found at i:1414514 original size:23 final size:23
Alignment explanation
Indices: 1414446--1414506 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
1414436 CATTATTATA
1414446 TGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1414469 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1414492 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1414507 TTTATATGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:1419185 original size:103 final size:103
Alignment explanation
Indices: 1419031--1419260 Score: 397
Period size: 103 Copynumber: 2.2 Consensus size: 103
1419021 GTCGAGGGTC
1419031 TATGTGGTCCTTCGGGACATATATATATATATTATTTGGAACATGTGTGAAGTCTGGTGAGACAC
1 TATGTGGTCCTTCGGGAC----ATATATATATTATTTGGAACATGTGTGAAGTCTGGTGAGACAC
1419096 ATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
62 ATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
1419138 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTATTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1419203 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
1419241 TATGTGGTCATTCGGGACAT
1 TATGTGGTCCTTCGGGACAT
1419261 TGTGGTCCTA
Statistics
Matches: 120, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
103 102 0.85
107 18 0.15
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTATTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1419266 original size:18 final size:18
Alignment explanation
Indices: 1419243--1419278 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1419233 AGGAATGATA
*
1419243 TGTGGTCATTCGGGACAT
1 TGTGGTCATACGGGACAT
*
1419261 TGTGGTCCTACGGGACAT
1 TGTGGTCATACGGGACAT
1419279 ATATGTATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (18 bp):
TGTGGTCATACGGGACAT
Found at i:1419354 original size:121 final size:121
Alignment explanation
Indices: 1419140--1419367 Score: 429
Period size: 121 Copynumber: 1.9 Consensus size: 121
1419130 AGGAATGATA
*
1419140 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTACGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1419205 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCATTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCATTCGGGACAT
*
1419261 TGTGGTCCTACGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTACGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
1419326 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTG
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTG
1419368 ATCCTTATGG
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 104 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (121 bp):
TGTGGTCCTACGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCATTCGGGACAT
Found at i:1419457 original size:23 final size:23
Alignment explanation
Indices: 1419389--1419449 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
1419379 CATTATTATA
1419389 TGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1419412 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
1419435 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
1419450 TTTATATGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:1421261 original size:33 final size:34
Alignment explanation
Indices: 1421223--1421339 Score: 220
Period size: 33 Copynumber: 3.5 Consensus size: 34
1421213 CGATTATATA
1421223 TATATATATAATATTTTTTA-TTTTTATATTAAT
1 TATATATATAATATTTTTTATTTTTTATATTAAT
1421256 TATATATATAATATTTTTTATTTTTTATATTAAT
1 TATATATATAATATTTTTTATTTTTTATATTAAT
1421290 TATATATATAAT-TTTTTTATTTTTTATATTAAT
1 TATATATATAATATTTTTTATTTTTTATATTAAT
1421323 TATATATATAATATTTT
1 TATATATATAATATTTT
1421340 CGGGTTCGGG
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
33 53 0.65
34 29 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (34 bp):
TATATATATAATATTTTTTATTTTTTATATTAAT
Found at i:1421911 original size:18 final size:18
Alignment explanation
Indices: 1421884--1421919 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1421874 GTATACAAAT
* *
1421884 TAAAATATAAACTAATAA
1 TAAAAAATAAACGAATAA
1421902 TAAAAAATAAACGAATAA
1 TAAAAAATAAACGAATAA
1421920 AACGTTCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (18 bp):
TAAAAAATAAACGAATAA
Found at i:1435907 original size:2 final size:2
Alignment explanation
Indices: 1435888--1436270 Score: 170
Period size: 2 Copynumber: 193.0 Consensus size: 2
1435878 AAATTGTGAC
* *
1435888 AT AT AT AA AT AT GA- AT AT AT AT AT AT AC AT AT AT AT ACT -T AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * *
1435930 GT A- AT -T AT AT AC AT AT AT AA AT GT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** * * * * * *
1435970 CAT GC AT AT GT AT AT AT AT AT AC AC AT AT TT AT TT AT AT GT AT
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
1436013 TT AT AT AC ACT -T AT GT AT AT AC AT CAT AC AT AT AT AC AT AC AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
**
1436056 CAT -T A- AT CAT GC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1436098 AT AT AT AT A- AGT AT AT CT AT CT AT CA- AG GT AT AT AT ACT -T
1 AT AT AT AT AT A-T AT AT AT AT AT AT -AT AT AT AT AT AT A-T AT
*
1436138 AT AT AT -T AA AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** * *
1436178 AT GG AT A- AGT AT AT A- AGT AT A- AC AT AT AT AC AT ACT -T AT
1 AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT
* * * * **
1436217 AG GT AT AT GT AT A- AGT AT AT AT AT TT AT GC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
1436259 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1436271 TAATTATATT
Statistics
Matches: 276, Mismatches: 74, Indels: 62
0.67 0.18 0.15
Matches are distributed among these distances:
1 17 0.06
2 242 0.88
3 17 0.06
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1441914 original size:3 final size:3
Alignment explanation
Indices: 1441890--1441971 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
1441880 CGGGTTTTGA
* *
1441890 AAT ATT AAT AAAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT TAT
1 AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
1441937 AAT TAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1441972 CATTAAAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1442236 original size:17 final size:17
Alignment explanation
Indices: 1442214--1442269 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1442204 TTGAATAAGC
1442214 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
* *
1442231 TCTTCTTCTCCTGATG-AGT
1 TCTTCTTAT--T-ATGAACT
*
1442250 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
1442267 TCT
1 TCT
1442270 CTGGGAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 3 0.10
17 14 0.47
19 10 0.33
20 3 0.10
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:1442642 original size:229 final size:224
Alignment explanation
Indices: 1442243--1442830 Score: 968
Period size: 225 Copynumber: 2.6 Consensus size: 224
1442233 TTCTTCTCCT
1442243 GATGAGTTCTTCTCATTATGAACTTCTCTGGGAAAACTGACCCATCAAGTGATGGATTTGAGCAA
1 GATGAGTTCTTCTCATTATGAACTTCTCT-GGAAAACTGACCCATCAAGTGATGGATTTGAGCAA
* *
1442308 AAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTTCTTCAGATGAG---TTCTCATT
65 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TTCCTTCTTCAGATGAGTTCTTCTCATT
*
1442370 ATGAACTCGAACTGGAAAAGATAGTCCATCAAGTGATAGATTTGAACAAAAGGTTGAACAAATTT
129 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAACAAAAGGTTGAACAAATTT
1442435 TTCTCGTTATGAACTTCTTCATCCTTCTTCAA
194 TTCTCGTTATGAACTTCTTCATCCTTCTTC-A
** * * *
1442467 GTAATGAGTTCTTCTCATTATGAAC-TCTACCTGGAAATTTTAATCCATCAAGTGATAGATTTGA
1 G--ATGAGTTCTTCTCATTATGAACTTCT--CTGGAAA-ACTGACCCATCAAGTGATGGATTTGA
*
1442531 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
61 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1442596 ATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAACAAAAGGTTGAACAAA
126 ATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAACAAAAGGTTGAACAAA
1442661 TTTTTCTCGTTATGAACTTCTTCATCCTTCTTCA
191 TTTTTCTCGTTATGAACTTCTTCATCCTTCTTCA
1442695 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGACCCATCAAGTGATGGATTTGAGCAA
1 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA-CTGACCCATCAAGTGATGGATTTGAGCAA
* *
1442760 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAATTA
65 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1442825 TGAACT
130 TGAACT
1442831 TTTTCTGGAA
Statistics
Matches: 337, Mismatches: 17, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
224 1 0.00
225 103 0.31
226 64 0.19
227 65 0.19
228 2 0.01
229 102 0.30
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (224 bp):
GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAACTGACCCATCAAGTGATGGATTTGAGCAAA
AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAACAAAAGGTTGAACAAATTTTT
CTCGTTATGAACTTCTTCATCCTTCTTCA
Found at i:1442649 original size:113 final size:112
Alignment explanation
Indices: 1442197--1442830 Score: 811
Period size: 113 Copynumber: 5.7 Consensus size: 112
1442187 TAGAGTCATT
* ** * * *
1442197 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC-T--T-CTTCTCCTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
1442258 TTATGAACTTC-TCTGGGAAAA-CTGACCCATCAAGTGATGGATTTGAG
66 TTATGAAC-TCAACT-GGAAAAGATAATCCATCAAGTGATAGATTTGAG
* * *
1442305 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTTCTTCAGATGAG---TTCTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-ATCCTTCTTCAGATGAGTTCTTCTC
* *
1442367 ATTATGAACTCGAACTGGAAAAGATAGTCCATCAAGTGATAGATTTGAA
65 ATTATGAACTC-AACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
1442416 CAAAAGGTTGAACAAATTTTTCTCGTTATGAACTTCTTCATCCTTCTTCAAGTAATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC-AG--ATGAGTTCTTC
* ***
1442481 TCATTATGAACTCTACCTGGAAATTTTAATCCATCAAGTGATAGATTTGAG
63 TCATTATGAACTC-AACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
1442532 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*
1442597 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAA
66 TTATGAACTC-AACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
1442645 CAAAAGGTTGAACAAATTTTTCTCGTTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
1442710 TTATGAACTTC-TCTGGAAAAGCTGACCCATCAAGTGATGGATTTGAG
66 TTATGAAC-TCAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* * *
1442757 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1442822 TTATGAACT
66 TTATGAACT
1442831 TTTTCTGGAA
Statistics
Matches: 463, Mismatches: 48, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
108 31 0.07
109 3 0.01
110 28 0.06
111 61 0.13
112 99 0.21
113 143 0.31
114 2 0.00
115 2 0.00
116 94 0.20
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
Found at i:1443292 original size:22 final size:23
Alignment explanation
Indices: 1443267--1443321 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
1443257 CATAAAGTTT
*
1443267 TCATCTTTGAAAA-GAGAATCTG
1 TCATCTTTGAAAATGAGAATCTA
1443289 TCATCTTT-AAAATGAGAATCTA
1 TCATCTTTGAAAATGAGAATCTA
1443311 TCATCTTTGAA
1 TCATCTTTGAA
1443322 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.13
22 24 0.80
23 2 0.07
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (23 bp):
TCATCTTTGAAAATGAGAATCTA
Found at i:1443817 original size:54 final size:54
Alignment explanation
Indices: 1443693--1443893 Score: 245
Period size: 54 Copynumber: 3.8 Consensus size: 54
1443683 CACTGGTTCA
* * *
1443693 TAAAACATTTGACAATACATTCAT-CTTTTCTTGTGGTTTCTG-TC-GAG-ATG
1 TAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGAGTTTG
*
1443743 TAAAACACTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGA-GTTTG
* * **
1443797 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTCAGACGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGA-GTTTG
* *
1443851 TAAAGCGTTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGC
1443894 CAAGATTTCT
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
50 32 0.25
51 8 0.06
52 2 0.02
53 5 0.04
54 79 0.61
55 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGAGTTTG
Found at i:1446290 original size:115 final size:114
Alignment explanation
Indices: 1445987--1446322 Score: 529
Period size: 115 Copynumber: 3.0 Consensus size: 114
1445977 GATCATGCAG
* * * * * * * *
1445987 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCATATCAGATAACTC-AAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
1446051 ACACTT-CAG-A-AT-CTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
1446096 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1446161 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
1446210 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGG-TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1446275 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
1446323 CATGGTACTT
Statistics
Matches: 210, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
109 52 0.25
110 10 0.05
111 3 0.01
112 1 0.00
113 2 0.01
114 55 0.26
115 87 0.41
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:1455180 original size:14 final size:15
Alignment explanation
Indices: 1455157--1455193 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1455147 TTGTGGGTTA
1455157 TTTG-TTCTTTGTT-
1 TTTGTTTCTTTGTTC
1455170 TTTGTTTCTTTGTTC
1 TTTGTTTCTTTGTTC
*
1455185 TCTGTTTCT
1 TTTGTTTCT
1455194 GTCTCTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.19
14 9 0.43
15 8 0.38
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.73
Consensus pattern (15 bp):
TTTGTTTCTTTGTTC
Found at i:1455637 original size:3 final size:3
Alignment explanation
Indices: 1455609--1455690 Score: 92
Period size: 3 Copynumber: 26.7 Consensus size: 3
1455599 CGGGTTTTGA
* * * *
1455609 AAT ATT AAT AAAT AAT ATAT ATT AAT AAT AAT AAT AAT AAT TAT TAT
1 AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
1455656 AAT TAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1455691 CATTAAAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 61 0.91
4 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:1458307 original size:19 final size:20
Alignment explanation
Indices: 1458280--1458318 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1458270 AGATTAATCA
*
1458280 ATTAATAAAT-TAAATATTG
1 ATTAATAAATAAAAATATTG
*
1458299 ATTATTAAATAAAAATATTG
1 ATTAATAAATAAAAATATTG
1458319 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTAATAAATAAAAATATTG
Found at i:1460879 original size:31 final size:31
Alignment explanation
Indices: 1460836--1460916 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
1460826 ACTTACTGAT
* *
1460836 ATTTAGTT-CTTAACTTTATATTTTTGGTAC
1 ATTTAATTCCTTAACTTTATATTTTAGGTAC
*
1460866 ATTTAATTCCTTAACTTTTTATTTTAGGTAC
1 ATTTAATTCCTTAACTTTATATTTTAGGTAC
*
1460897 ATTTGATTCCTTAACTTTAT
1 ATTTAATTCCTTAACTTTAT
1460917 TACGTAAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 7 0.16
31 38 0.84
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (31 bp):
ATTTAATTCCTTAACTTTATATTTTAGGTAC
Found at i:1471254 original size:31 final size:31
Alignment explanation
Indices: 1471211--1471311 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
1471201 AAAGATCCTC
*
1471211 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
1471242 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
* *
1471273 GGTAAAACTGTCCATATGTTCCGTAGAATATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
1471305 GGTAAAC
1 GGTAAAC
1471312 CCTCGACTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
31 33 0.57
32 25 0.43
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:1472716 original size:21 final size:20
Alignment explanation
Indices: 1472686--1472729 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1472676 ATTCTGTCGT
* *
1472686 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
1472706 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
1472727 TTG
1 TTG
1472730 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:1482972 original size:21 final size:21
Alignment explanation
Indices: 1482942--1482989 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1482932 ACTAGAAACA
*
1482942 TTATTATTTCTACCGATTTTG
1 TTATTTTTTCTACCGATTTTG
*
1482963 TTATTTTTTCTACCGGTTTTG
1 TTATTTTTTCTACCGATTTTG
1482984 TTATTT
1 TTATTT
1482990 AAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.62
Consensus pattern (21 bp):
TTATTTTTTCTACCGATTTTG
Found at i:1493343 original size:2 final size:2
Alignment explanation
Indices: 1493336--1493376 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1493326 ACGATCTTTC
1493336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1493377 ACTACACCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1496138 original size:18 final size:18
Alignment explanation
Indices: 1496083--1496139 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
1496073 GGACATATGT
*
1496083 GATAT-GTGGTCCTTCGG
1 GATATAGTGGTCCTACGG
* *
1496100 GACATAGTGGTTCTACGG
1 GATATAGTGGTCCTACGG
1496118 GATATAGTGGTCCTACGG
1 GATATAGTGGTCCTACGG
1496136 GATA
1 GATA
1496140 AATTCTACGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 4 0.12
18 30 0.88
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (18 bp):
GATATAGTGGTCCTACGG
Found at i:1501463 original size:44 final size:44
Alignment explanation
Indices: 1501353--1501749 Score: 605
Period size: 44 Copynumber: 9.0 Consensus size: 44
1501343 CCATTTAATC
* * * * * *
1501353 CATAAACTCGTAAGTTTATTTTAACAATATACTTACCATTAAATC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTA-TAATTT
* * * *
1501398 CCTAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
* *
1501442 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATTATTC
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
1501486 CATAAGCTCGTAAGCTTATTTTACCAACATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
* *
1501530 CATAAGTTCGTAAACTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
1501574 CATAAGCACGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
* * *
1501618 CATAAGCTCATAAACTTATTTTACCAATATACTTTCTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
*
1501662 CATAAGCTTGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1501706 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1 CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
1501750 GCATCACTGA
Statistics
Matches: 326, Mismatches: 26, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
44 292 0.90
45 34 0.10
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.41
Consensus pattern (44 bp):
CATAAGCTCGTAAGCTTATTTTACCAATATACTTACTATAATTT
Found at i:1502066 original size:59 final size:59
Alignment explanation
Indices: 1501826--1502264 Score: 343
Period size: 59 Copynumber: 7.4 Consensus size: 59
1501816 TATACAATTC
* * * * * * * *
1501826 GTATAATTTCCTTATAATGTTAGGACTCTCAGTGCTCTATCTGGAATAT-CATATACTTA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAA-ATCCATACACTCA
* * * ** * * *
1501885 ATATGATTTCCTTCTCATTTTAGCAAACGAAGTGCCCTAT-TTGAGAATCCATAC-CATTA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGA-AATCCATACAC-TCA
* * * * * *
1501944 GTATGA-TTCCTTTACCATTTTTGTCACA-TGAAGTGCCCTATATGAAAATCCATACTA-TTA
1 GTATGATTTCC-TTATCATTTTAG-CACACT-CAGTGCTCTATATGGAAATCCATAC-ACTCA
* * * * * * * * *
1502004 GTATGATTTCCTTATCCTTGTATCACCCTTAGTGTTTTTTCTGGAAATCCATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCA
* * * * * * ** * *
1502063 GTATGATTTCCTTACCATATTAGCACA-TATAATGCCCTATCTAAAAATCCATATATTCA
1 GTATGATTTCCTTATCATTTTAGCACACT-CAGTGCTCTATATGGAAATCCATACACTCA
*
1502122 GTATGATTTCCTTATCATTTTAGTACACTCAGTGCTCTATATGGAAATCCATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCA
* * * *
1502181 GTATGTTTTCCTTATAATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCA
1502240 GTATGATTTCCTTATCATTTTAGCA
1 GTATGATTTCCTTATCATTTTAGCA
1502265 TATATAGTGC
Statistics
Matches: 298, Mismatches: 68, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
58 12 0.04
59 239 0.80
60 41 0.14
61 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (59 bp):
GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCA
Found at i:1502236 original size:177 final size:177
Alignment explanation
Indices: 1501826--1502275 Score: 448
Period size: 177 Copynumber: 2.5 Consensus size: 177
1501816 TATACAATTC
* * * * * * *
1501826 GTATAATTTCCTTATAATGTTAGGACTCTCAGTGCTCTATCTGG-AATATCATATACTTAATATG
1 GTATGATTTCCTTATAATTTTAGCACACTCAGTGCTCTATCTGGAAAT-TCATACACTCAGTATG
* * * *
1501890 ATTTCCTT-CTCATTTTAGCAA-ACGAAGTGCCCTATTTGAGAATCCATACCATTAGTATGATTC
65 ATTTCCTTAC-CATTTTAGCAATA-TAA-TGCCCTATCTAAAAATCCATACCATTAGTATGATTC
* *
1501953 CTTTACCATTTTTGTCACATGAAGTGCCCTATATGAAAATCCATACTATTA
127 CTTTACCATTTTAGTCACATGAAGTGCCCTATATGAAAATCCATACTATCA
** * * * * * * * *
1502004 GTATGATTTCCTTATCCTTGTATCACCCTTAGTGTTTTTTCTGGAAATCCATACACTCAGTATGA
1 GTATGATTTCCTTATAATTTTAGCACACTCAGTGCTCTATCTGGAAATTCATACACTCAGTATGA
* *
1502069 TTTCCTTACCATATTAGCACATATAATGCCCTATCTAAAAATCCATA-TATTCAGTATGATTTCC
66 TTTCCTTACCATTTTAGCA-ATATAATGCCCTATCTAAAAATCCATACCATT-AGTATGA-TTCC
* * * *
1502133 -TTATCATTTTAGT-ACACT-CAGTGCTCTATATGGAAATCCATAC-ACTCA
128 TTTACCATTTTAGTCACA-TGAAGTGCCCTATATGAAAATCCATACTA-TCA
* * *
1502181 GTATGTTTTCCTTATAATTTTAGCACACTCAGTGCTCCATATGGAAATTCATACACTCAGTATGA
1 GTATGATTTCCTTATAATTTTAGCACACTCAGTGCTCTATCTGGAAATTCATACACTCAGTATGA
* *
1502246 TTTCCTTATCATTTTAGCATATATAGTGCC
66 TTTCCTTACCATTTTAGCA-ATATAATGCC
1502276 ATTTGGAAAT
Statistics
Matches: 219, Mismatches: 45, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
176 1 0.00
177 108 0.49
178 98 0.45
179 11 0.05
180 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (177 bp):
GTATGATTTCCTTATAATTTTAGCACACTCAGTGCTCTATCTGGAAATTCATACACTCAGTATGA
TTTCCTTACCATTTTAGCAATATAATGCCCTATCTAAAAATCCATACCATTAGTATGATTCCTTT
ACCATTTTAGTCACATGAAGTGCCCTATATGAAAATCCATACTATCA
Found at i:1503371 original size:30 final size:34
Alignment explanation
Indices: 1503337--1503398 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 34
1503327 AATCATATTC
1503337 ATCCTCGT-CTTTT-ATT-ATTT-AATTTAATAA
1 ATCCTCGTACTTTTAATTCATTTCAATTTAATAA
*
1503367 ATCCTCGTATTTTTAATTCATTTCAATTTAAT
1 ATCCTCGTACTTTTAATTCATTTCAATTTAAT
1503399 CCTTAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 8 0.30
31 4 0.15
32 3 0.11
33 4 0.15
34 8 0.30
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.53
Consensus pattern (34 bp):
ATCCTCGTACTTTTAATTCATTTCAATTTAATAA
Found at i:1507469 original size:52 final size:52
Alignment explanation
Indices: 1507386--1507489 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
1507376 ATTATAAAAT
* *
1507386 CCTTCTAATTAGTTGTAATCCCCCAACTCTAGGTTAGTTTCCTATTTTTGTG
1 CCTTCTAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCCTATTTCTGTG
* *
1507438 CCTTGTAATTAGTTGTAATTCCCCAACTCTAGGCTAGTTTCCTATTTCTGTG
1 CCTTCTAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCCTATTTCTGTG
1507490 TGCCCAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.43
Consensus pattern (52 bp):
CCTTCTAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCCTATTTCTGTG
Found at i:1508856 original size:22 final size:22
Alignment explanation
Indices: 1508812--1508856 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1508802 CTTGCAATTT
* * *
1508812 TATCACTGAAGTGTCTTAGCAC
1 TATCACTAAAGTGTCTCAACAC
1508834 TATCACTAAAGTGTCTCAACAC
1 TATCACTAAAGTGTCTCAACAC
1508856 T
1 T
1508857 GCTACGGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (22 bp):
TATCACTAAAGTGTCTCAACAC
Found at i:1511089 original size:19 final size:19
Alignment explanation
Indices: 1511062--1511109 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1511052 TACTGTTCAT
*
1511062 TACTGTTCATATAGTATAG
1 TACTGTTCATACAGTATAG
* *
1511081 TACTATTCATACCGTATAG
1 TACTGTTCATACAGTATAG
1511100 TACTGTTCAT
1 TACTGTTCAT
1511110 GAAAACATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (19 bp):
TACTGTTCATACAGTATAG
Found at i:1516736 original size:2 final size:2
Alignment explanation
Indices: 1516731--1516775 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1516721 CCTTTTTTTC
1516731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1516773 AT A
1 AT A
1516776 GGGTAAGGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1520298 original size:18 final size:18
Alignment explanation
Indices: 1520275--1520315 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1520265 AAGAAGCCGA
1520275 ATTCGGGCTAGAGTTCGG
1 ATTCGGGCTAGAGTTCGG
1520293 ATTCGGGCTAGAGTTCGG
1 ATTCGGGCTAGAGTTCGG
1520311 ATTCG
1 ATTCG
1520316 AGAGGAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.37, T:0.29
Consensus pattern (18 bp):
ATTCGGGCTAGAGTTCGG
Found at i:1524234 original size:25 final size:24
Alignment explanation
Indices: 1524198--1524256 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 24
1524188 TTTTATGTTA
* *
1524198 AGAAAAATAAATTTTTAAATTTTT
1 AGAAAAATAAATTTATAAAATTTT
1524222 AGAAAAGATAAATTTATAAAATTTT
1 AGAAAA-ATAAATTTATAAAATTTT
1524247 A-AAAAATAAA
1 AGAAAAATAAA
1524257 AATAGATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 5 0.16
24 10 0.31
25 17 0.53
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (24 bp):
AGAAAAATAAATTTATAAAATTTT
Found at i:1524351 original size:15 final size:15
Alignment explanation
Indices: 1524300--1524354 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
1524290 AATGATTTAT
1524300 AATTTTAATCTAGTA
1 AATTTTAATCTAGTA
* ** *
1524315 AATTTAAAAATACTTAA
1 AATTTTAATCTA-GT-A
1524332 AATTTTAATCTAGTA
1 AATTTTAATCTAGTA
1524347 AATTTTAA
1 AATTTTAA
1524355 AATATAACTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 18 0.60
16 2 0.07
17 10 0.33
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (15 bp):
AATTTTAATCTAGTA
Found at i:1526381 original size:19 final size:20
Alignment explanation
Indices: 1526327--1526399 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 20
1526317 ACTGCAAAAC
*
1526327 AAATATATATATATGTAAATA
1 AAATATATATATAT-AAAATA
** *
1526348 CGATATATGTA-ATAAAATA
1 AAATATATATATATAAAATA
*
1526367 AAATATAT-TATATAATAT-
1 AAATATATATATATAAAATA
*
1526385 AAGTATAT-TATATAA
1 AAATATATATATATAA
1526400 TATCAAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 16 0.37
19 17 0.40
20 2 0.05
21 8 0.19
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATATATATATATAAAATA
Found at i:1526487 original size:31 final size:30
Alignment explanation
Indices: 1526439--1526499 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
1526429 ATCAGTATGA
* * * *
1526439 GAGGATAACATATAATTAATTATATAAAAT
1 GAGGATAAAATACAATTAATCATAAAAAAT
1526469 GAGGAGTAAAATACAATTAATCATAAAAAAT
1 GAGGA-TAAAATACAATTAATCATAAAAAAT
1526500 AAAGGGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (30 bp):
GAGGATAAAATACAATTAATCATAAAAAAT
Found at i:1537073 original size:17 final size:16
Alignment explanation
Indices: 1537042--1537077 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1537032 AACAATTGAA
*
1537042 TATGTTATTTATTATT
1 TATGTTATATATTATT
1537058 TATGTTATAATATTATT
1 TATGTTAT-ATATTATT
1537075 TAT
1 TAT
1537078 TATTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TATGTTATATATTATT
Found at i:1537089 original size:17 final size:17
Alignment explanation
Indices: 1537051--1537089 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1537041 ATATGTTATT
*
1537051 TATTATTTATGTTATAA
1 TATTATTTATATTATAA
1537068 TATTATTTATTATTATAA
1 TATTATTTA-TATTATAA
1537086 -ATTA
1 TATTA
1537090 AAATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTTATATTATAA
Found at i:1537098 original size:24 final size:24
Alignment explanation
Indices: 1537046--1537099 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1537036 ATTGAATATG
** *
1537046 TTATTTATTATTTATGTTATAATA
1 TTATTTATTATTTAAATTAAAATA
1537070 TTATTTATTATTATAAATTAAAATA
1 TTATTTATTATT-TAAATTAAAATA
1537095 -TATTT
1 TTATTT
1537100 TGAGTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTTATTATTTAAATTAAAATA
Found at i:1537230 original size:27 final size:27
Alignment explanation
Indices: 1537195--1537258 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
1537185 TTAAAAATAT
*
1537195 TTTTAAAAACCTATATATAATATATAG
1 TTTTAAAAACATATATATAATATATAG
* * *
1537222 TTTTGAAAACATTTATATATTATATAG
1 TTTTAAAAACATATATATAATATATAG
1537249 TTTTTAAAAA
1 -TTTTAAAAA
1537259 TATTTTGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTTAAAAACATATATATAATATATAG
Found at i:1537256 original size:67 final size:66
Alignment explanation
Indices: 1537161--1537371 Score: 185
Period size: 73 Copynumber: 3.1 Consensus size: 66
1537151 ATTTTCGTCT
*
1537161 CATTATATATATATATATATTAGTTTAAAAATATTTTTAAAAACCTATATATAATATATAGTTTT
1 CATTATATATATATATATATTA-TTTAAAAATA-TTTTAAAAA--TAAATATAATATATAGTTTT
1537226 GAAAA
62 GAAAA
* *
1537231 CATT-TATATAT-TATATAGTT-TTTAAAAATATTTTGAAAATAAATATAATATATAGTTTTTAA
1 CATTATATATATATATATA-TTATTTAAAAATATTTTAAAAATAAATATAATATATAGTTTTGAA
1537293 ATA
65 A-A
** * * * * * *
1537296 TTTTTTGAAAGTATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATT
1 CATTAT-ATA-TATATATA-TAT-TA--TTTAAAAATATTTTAAAAATAAATATAATATATAGTT
*
1537361 TTTAAAA
60 TTGAAAA
1537368 CATT
1 CATT
1537372 TTTTTAAAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
64 22 0.18
65 3 0.03
66 9 0.08
67 12 0.10
68 9 0.08
69 14 0.12
70 7 0.06
72 3 0.03
73 40 0.34
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (66 bp):
CATTATATATATATATATATTATTTAAAAATATTTTAAAAATAAATATAATATATAGTTTTGAAA
A
Found at i:1537283 original size:37 final size:37
Alignment explanation
Indices: 1537235--1537527 Score: 247
Period size: 37 Copynumber: 8.1 Consensus size: 37
1537225 TGAAAACATT
*
1537235 TATATATTATATAGTTTTTAAAAATATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* * * *
1537272 AATATAATATATAGTTTTTAAATATTTTTTGAAAGTA
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* *
1537309 TATATATTATATAGTTTTT-AAAGTATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* * * *
1537345 AATATAATATATAATTTTTAAAACATTTTTTTAAAA-A
1 TATATAATATATAGTTTTTAAAA-ATATTTTGAAAATA
* *
1537382 TATATATTATATAGTTTTT--AAACATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* *
1537417 TATAT-A-GT-T--TTTTAAAAAATATTTTGAAGAACATA
1 TATATAATATATAGTTTTTAAAAATATTTTG-A-AA-ATA
* *
1537452 TATATATTATATAGTTTTT--AAATCA-TTTCAAAA-A
1 TATATAATATATAGTTTTTAAAAAT-ATTTTGAAAATA
*
1537486 CT-TATAATATATAG-TTTTAAAAACATTTTTGAAAACTA
1 -TATATAATATATAGTTTTTAAAAATA-TTTTGAAAA-TA
1537524 TATA
1 TATA
1537528 ATTTTGAAAA
Statistics
Matches: 200, Mismatches: 34, Indels: 43
0.72 0.12 0.16
Matches are distributed among these distances:
30 4 0.02
32 10 0.05
33 6 0.03
34 24 0.12
35 21 0.10
36 38 0.19
37 72 0.36
38 20 0.10
39 1 0.00
40 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
Found at i:1537347 original size:73 final size:71
Alignment explanation
Indices: 1537235--1537527 Score: 300
Period size: 73 Copynumber: 4.1 Consensus size: 71
1537225 TGAAAACATT
*
1537235 TATATATTATATAGTTTTTAAAAATATTTTGAAAATAAATATAATATATAGTTTTTAAATATTTT
1 TATATATTATATAGTTTTT--AAATATTTTGAAAATAAATATAATATATAGTTTTTAAAAATTTT
1537300 TTGAAAGTA
64 TTGAAA-TA
*
1537309 TATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATTTTTAAAACATTTT
1 TATATATTATATAGTTTTTAAA-TATTTTGAAAATAAATATAATATATAGTTTTTAAAA-ATTTT
* *
1537374 TTTAAAAA
64 TTGAAATA
* *
1537382 TATATATTATATAGTTTTTAAACATTTTGAAAAT--ATAT-ATAGT-T--TTTTAAAAAATATTT
1 TATATATTATATAGTTTTTAAATATTTTGAAAATAAATATAATA-TATAGTTTTTAAAAAT-TTT
*
1537441 TGAAGAACATA
64 T--TGAA-ATA
* ** *
1537452 TATATATTATATAGTTTTTAAATCA-TTTCAAAA-ACTTATAATATATAG-TTTTAAAAACATTT
1 TATATATTATATAGTTTTTAAAT-ATTTTGAAAATAAATATAATATATAGTTTTTAAAAA-TTTT
1537514 TTGAAA-A
64 TTGAAATA
1537521 CTATATA
1 -TATATA
1537528 ATTTTGAAAA
Statistics
Matches: 188, Mismatches: 15, Indels: 36
0.79 0.06 0.15
Matches are distributed among these distances:
66 2 0.01
67 12 0.06
69 7 0.04
70 43 0.23
71 8 0.04
72 18 0.10
73 69 0.37
74 29 0.15
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (71 bp):
TATATATTATATAGTTTTTAAATATTTTGAAAATAAATATAATATATAGTTTTTAAAAATTTTTT
GAAATA
Found at i:1537526 original size:29 final size:29
Alignment explanation
Indices: 1537493--1537549 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1537483 AAACTTATAA
* *
1537493 TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAATTTTAAAAACATTTTTCAAAAC
*
1537522 TATATAATTTTGAAAACATTTTTCAAAA
1 TATATAATTTTAAAAACATTTTTCAAAA
1537550 AACATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (29 bp):
TATATAATTTTAAAAACATTTTTCAAAAC
Found at i:1537559 original size:30 final size:29
Alignment explanation
Indices: 1537493--1537559 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1537483 AAACTTATAA
* *
1537493 TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAATTTTAAAAACATTTTTAAAAAC
*
1537522 TATATAATTTTGAAAACATTTTTCAAAAAAC
1 TATATAATTTTAAAAACATTTTT--AAAAAC
1537553 -ATATAAT
1 TATATAAT
1537560 ATATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 21 0.64
30 7 0.21
31 5 0.15
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.40
Consensus pattern (29 bp):
TATATAATTTTAAAAACATTTTTAAAAAC
Found at i:1537619 original size:12 final size:13
Alignment explanation
Indices: 1537587--1537624 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
1537577 TTTGAAAATG
1537587 TATATTA-TATTA
1 TATATTATTATTA
1537599 TATATTATTATTA
1 TATATTATTATTA
*
1537612 T-TATTATTGTTA
1 TATATTATTATTA
1537624 T
1 T
1537625 CTTTTTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:1538739 original size:4 final size:4
Alignment explanation
Indices: 1538730--1538763 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
1538720 GTTTTTAGTT
1538730 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1538764 GTTATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1551981 original size:174 final size:176
Alignment explanation
Indices: 1551689--1552037 Score: 684
Period size: 174 Copynumber: 2.0 Consensus size: 176
1551679 GCCAATCCAG
1551689 CTGCTGTAGGAAAATTGTTATAAGACGCAATATGGAGATGCAGTTTCTCCCAATCTTTCTTCTCT
1 CTGCTGTAGGAAAATTGTTATAAGACGCAATATGGAGATGCAGTTTCTCCCAATCTTTCTTCTCT
1551754 ATCTTTATTCCTTTCTCTTTATCCTCAACTTCCCTAGCCCGTTTTCGGATTTCCCTCAAACAGTT
66 ATCTTTATTCCTTTCTCTTTATCCTCAACTTCCCTAGCCCGTTTTCGGATTTCCCTCAAACAGTT
1551819 CTGGTACCTTCCTCCGGAAAGGGACATTTCCTATAGTAACCAACAC
131 CTGGTACCTTCCTCCGGAAAGGGACATTTCCTATAGTAACCAACAC
1551865 CTGCTGTAGGAAAATTGTTATAAGA-GCAATATGGAGATGCAGTTTCT-CCAATCTTTCTTCTCT
1 CTGCTGTAGGAAAATTGTTATAAGACGCAATATGGAGATGCAGTTTCTCCCAATCTTTCTTCTCT
1551928 ATCTTTATTCCTTTCTCTTTATCCTCAACTTCCCTAGCCCGTTTTCGGATTTCCCTCAAACAGTT
66 ATCTTTATTCCTTTCTCTTTATCCTCAACTTCCCTAGCCCGTTTTCGGATTTCCCTCAAACAGTT
1551993 CTGGTACCTTCCTCCGGAAAGGGACATTTCCTATAGTAACCAACA
131 CTGGTACCTTCCTCCGGAAAGGGACATTTCCTATAGTAACCAACA
1552038 AAAGATTAAG
Statistics
Matches: 173, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 126 0.73
175 22 0.13
176 25 0.14
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (176 bp):
CTGCTGTAGGAAAATTGTTATAAGACGCAATATGGAGATGCAGTTTCTCCCAATCTTTCTTCTCT
ATCTTTATTCCTTTCTCTTTATCCTCAACTTCCCTAGCCCGTTTTCGGATTTCCCTCAAACAGTT
CTGGTACCTTCCTCCGGAAAGGGACATTTCCTATAGTAACCAACAC
Found at i:1560560 original size:3 final size:3
Alignment explanation
Indices: 1560554--1560583 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1560544 ATTAATTATT
1560554 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1560584 TTGGGACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1561235 original size:123 final size:123
Alignment explanation
Indices: 1561016--1561262 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
1561006 TATGCACTTG
1561016 AAGCATCCAAGTTTAGCCAAGACGAAGTGAACAAAAGAGGAAACGAAAAAGAAATTCATAAGGCT
1 AAGCATCCAAGTTTAGCCAAGACGAAGTGAACAAAAGAGGAAACGAAAAAGAAATTCATAAGGCT
1561081 ACATTTTGGATTAGTACATAGTGTTAAGGTGAGTGCATTCTTACTTATATTATTATAT
66 ACATTTTGGATTAGTACATAGTGTTAAGGTGAGTGCATTCTTACTTATATTATTATAT
1561139 AAGCATCCAAGTTTAGCCAAGACGAAGTGAACAAAAGAGGAAACGAAAAAGAAATTCATAAGGCT
1 AAGCATCCAAGTTTAGCCAAGACGAAGTGAACAAAAGAGGAAACGAAAAAGAAATTCATAAGGCT
1561204 ACATTTTGGATTAGTACATAGTGTTAAGGTGAGTGCATTCTTACTTATATTATTATAT
66 ACATTTTGGATTAGTACATAGTGTTAAGGTGAGTGCATTCTTACTTATATTATTATAT
1561262 A
1 A
1561263 TGAAATAAGG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (123 bp):
AAGCATCCAAGTTTAGCCAAGACGAAGTGAACAAAAGAGGAAACGAAAAAGAAATTCATAAGGCT
ACATTTTGGATTAGTACATAGTGTTAAGGTGAGTGCATTCTTACTTATATTATTATAT
Found at i:1562723 original size:22 final size:22
Alignment explanation
Indices: 1562698--1562761 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
1562688 ATTTAAATTA
*
1562698 TTATATTTAATCATTTGAAGTT
1 TTATATTTAATCATTTGAACTT
** * *
1562720 TTATTATTTTTTCAGTTAAACTT
1 TTA-TATTTAATCATTTGAACTT
1562743 TTATATTTAATCATTTGAA
1 TTATATTTAATCATTTGAA
1562762 TTCTTATCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (22 bp):
TTATATTTAATCATTTGAACTT
Found at i:1562754 original size:45 final size:45
Alignment explanation
Indices: 1562685--1562776 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 45
1562675 GAAGATAGAG
* *
1562685 TTCATTTAAATTATTATATTTAATCATTTGAAGTT-TTATTATTTT
1 TTCAGTTAAATTATTATATTTAATCATTTGAA-TTCTTATCATTTT
1562730 TTCAGTTAAACTT-TTATATTTAATCATTTGAATTCTTATCATTTT
1 TTCAGTTAAA-TTATTATATTTAATCATTTGAATTCTTATCATTTT
1562775 TT
1 TT
1562777 TTGTCAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 2 0.05
45 39 0.91
46 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (45 bp):
TTCAGTTAAATTATTATATTTAATCATTTGAATTCTTATCATTTT
Found at i:1562773 original size:23 final size:22
Alignment explanation
Indices: 1562686--1562758 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
1562676 AAGATAGAGT
1562686 TCATTTAAA-TTATTATATTTAA
1 TCATTTAAACTT-TTATATTTAA
* * **
1562708 TCATTTGAAGTTTTATTATTTTT
1 TCATTTAAACTTTTA-TATTTAA
*
1562731 TCAGTTAAACTTTTATATTTAA
1 TCATTTAAACTTTTATATTTAA
1562753 TCATTT
1 TCATTT
1562759 GAATTCTTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (22 bp):
TCATTTAAACTTTTATATTTAA
Found at i:1567142 original size:2 final size:2
Alignment explanation
Indices: 1567135--1567159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1567125 TGCTGTAATG
1567135 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
1567160 AATAAGAGAC
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:1571260 original size:2 final size:2
Alignment explanation
Indices: 1571253--1571289 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1571243 AAAAGCCATA
1571253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1571290 CACAAATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1575512 original size:12 final size:12
Alignment explanation
Indices: 1575497--1575531 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1575487 GGCGACCTAG
1575497 TGGGCATGAAAC
1 TGGGCATGAAAC
1575509 TGGGCATGAAAC
1 TGGGCATGAAAC
1575521 TGGGCATGAAA
1 TGGGCATGAAA
1575532 GCGCTGACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.17
Consensus pattern (12 bp):
TGGGCATGAAAC
Found at i:1575620 original size:12 final size:12
Alignment explanation
Indices: 1575603--1575635 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1575593 GGAAGACTCA
1575603 GGCATGAAACTG
1 GGCATGAAACTG
1575615 GGCATGAAACTG
1 GGCATGAAACTG
1575627 GGCATGAAA
1 GGCATGAAA
1575636 GCGCTGACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.33, T:0.15
Consensus pattern (12 bp):
GGCATGAAACTG
Found at i:1575679 original size:104 final size:104
Alignment explanation
Indices: 1575499--1575707 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
1575489 CGACCTAGTG
1575499 GGCATGAAACTGGGCATGAAACTGGGCATGAAAGCGCTGACGTGGAATCCAGTCAGCATCTTCTA
1 GGCATGAAACTGGGCATGAAACTGGGCATGAAAGCGCTGACGTGGAATCCAGTCAGCATCTTCTA
1575564 GAAGGTCCAATTAGCATTCTTGTGGAAGAGGAAGACTCA
66 GAAGGTCCAATTAGCATTCTTGTGGAAGAGGAAGACTCA
1575603 GGCATGAAACTGGGCATGAAACTGGGCATGAAAGCGCTGACGTGGAATCCAGTCAGCATCTTCTA
1 GGCATGAAACTGGGCATGAAACTGGGCATGAAAGCGCTGACGTGGAATCCAGTCAGCATCTTCTA
1575668 GAAGGTCCAATTAGCATTCTTGTGGAAGAGGAAGACTCA
66 GAAGGTCCAATTAGCATTCTTGTGGAAGAGGAAGACTCA
1575707 G
1 G
1575708 CCACAAATTC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (104 bp):
GGCATGAAACTGGGCATGAAACTGGGCATGAAAGCGCTGACGTGGAATCCAGTCAGCATCTTCTA
GAAGGTCCAATTAGCATTCTTGTGGAAGAGGAAGACTCA
Found at i:1577037 original size:28 final size:30
Alignment explanation
Indices: 1576982--1577039 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
1576972 TAAAAACACT
*
1576982 TAAATTAGTTTTCTACATTCTCTAGTAATA
1 TAAATTAGTTTTCTACATTCTATAGTAATA
* *
1577012 TAAATTA-TTTTTTAC-TTCTATCGTAATA
1 TAAATTAGTTTTCTACATTCTATAGTAATA
1577040 ATATGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.44
29 7 0.28
30 7 0.28
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (30 bp):
TAAATTAGTTTTCTACATTCTATAGTAATA
Found at i:1577518 original size:2 final size:2
Alignment explanation
Indices: 1577511--1577555 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1577501 GAATCTAGCA
1577511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1577552 AT AT
1 AT AT
1577556 TGTCATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1580042 original size:66 final size:66
Alignment explanation
Indices: 1579930--1580070 Score: 264
Period size: 66 Copynumber: 2.1 Consensus size: 66
1579920 TCCGGGCATA
1579930 ATATGATTACTTTTGTGGATTCATGAAATATTCCTATTTTTCCTTTTCCATACATGATGCGATTA
1 ATATG-TTACTTTTGTGGATTCATGAAATATTCCTATTTTTCCTTTTCCATACATGATGCGATTA
1579995 TT
65 TT
1579997 ATATGTTACTTTTGTGGATTCATGAAATATTCCTATTTTTCCTTTTCCATACATGATGCGATTAT
1 ATATGTTACTTTTGTGGATTCATGAAATATTCCTATTTTTCCTTTTCCATACATGATGCGATTAT
1580062 T
66 T
1580063 ATAATGTT
1 AT-ATGTT
1580071 TTAAAACTAG
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 63 0.86
67 10 0.14
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (66 bp):
ATATGTTACTTTTGTGGATTCATGAAATATTCCTATTTTTCCTTTTCCATACATGATGCGATTAT
T
Found at i:1580052 original size:31 final size:31
Alignment explanation
Indices: 1579951--1580052 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
1579941 TTTGTGGATT
1579951 CATGAAATATTCCTATTTTTCCTTTTCCATA
1 CATGAAATATTCCTATTTTTCCTTTTCCATA
* * * * * ** *
1579982 CATGATGCGATTATT-ATATGTTACTTTTGTGGATT
1 CATGA----AATATTCCTATTTTTCCTTT-TCCATA
1580017 CATGAAATATTCCTATTTTTCCTTTTCCATA
1 CATGAAATATTCCTATTTTTCCTTTTCCATA
1580048 CATGA
1 CATGA
1580053 TGCGATTATT
Statistics
Matches: 49, Mismatches: 16, Indels: 12
0.64 0.21 0.16
Matches are distributed among these distances:
31 18 0.37
32 9 0.18
34 9 0.18
35 13 0.27
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (31 bp):
CATGAAATATTCCTATTTTTCCTTTTCCATA
Found at i:1585012 original size:16 final size:16
Alignment explanation
Indices: 1584991--1585025 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1584981 TTATATCGTT
*
1584991 ATTTAAGATTTAATTA
1 ATTTAAGATTAAATTA
*
1585007 ATTTAATATTAAATTA
1 ATTTAAGATTAAATTA
1585023 ATT
1 ATT
1585026 CATAAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTAAGATTAAATTA
Found at i:1585528 original size:2 final size:2
Alignment explanation
Indices: 1585523--1585551 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1585513 TAAAATTTTC
1585523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1585552 GTATTTAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1585945 original size:15 final size:15
Alignment explanation
Indices: 1585918--1585946 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1585908 TGGAATTAGG
1585918 ATTTTTAGAATTTTA
1 ATTTTTAGAATTTTA
1585933 ATTTTTAGAATTTT
1 ATTTTTAGAATTTT
1585947 TTTTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
ATTTTTAGAATTTTA
Found at i:1606199 original size:12 final size:12
Alignment explanation
Indices: 1606176--1606200 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1606166 CCGGGTATTA
1606176 GGCTGAGTATCG
1 GGCTGAGTATCG
1606188 GGCTGAGTATCG
1 GGCTGAGTATCG
1606200 G
1 G
1606201 ATCAGGTATA
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:0.16, C:0.16, G:0.44, T:0.24
Consensus pattern (12 bp):
GGCTGAGTATCG
Found at i:1606670 original size:2 final size:2
Alignment explanation
Indices: 1606663--1606699 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1606653 ATTGTTTGAA
1606663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1606700 ATTATTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1610779 original size:6 final size:6
Alignment explanation
Indices: 1610770--1610828 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
1610760 ATCTTTGTAC
* * * *
1610770 GTGGAC GTGGAC GTGGAC GTGAAT GTGGAT GTGGAT GTGGAT GTGGAT
1 GTGGAT GTGGAT GTGGAT GTGGAT GTGGAT GTGGAT GTGGAT GTGGAT
1610818 GTGGAT GTGGA
1 GTGGAT GTGGA
1610829 ATGGCTTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.19, C:0.05, G:0.49, T:0.27
Consensus pattern (6 bp):
GTGGAT
Found at i:1612908 original size:26 final size:27
Alignment explanation
Indices: 1612856--1612911 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
1612846 ATTTTAAATA
* * * *
1612856 AAAATAAAAATATTTTTATATTTTATT
1 AAAATAAAAATATCTATAAATTATATT
1612883 AAAATAAAAATA-CTATAAATTATATT
1 AAAATAAAAATATCTATAAATTATATT
1612909 AAA
1 AAA
1612912 TATTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATAAAAATATCTATAAATTATATT
Found at i:1612924 original size:37 final size:40
Alignment explanation
Indices: 1612877--1612973 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 40
1612867 ATTTTTATAT
*
1612877 TTTATTAAAATAAAAATAC-TA-TA-AATTATATTAAATA
1 TTTATTAAAATAAAAATACATATTATAAGTATATTAAATA
*
1612914 TTTATTAAAATAAAAATAACATATTATTAAGTATATTAATTA
1 TTTATTAAAATAAAAAT-ACATATTA-TAAGTATATTAAATA
* *
1612956 CTTATTAAAATAATAATA
1 TTTATTAAAATAAAAATA
1612974 TTATTAAGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
37 17 0.33
38 2 0.04
39 2 0.04
40 2 0.04
41 1 0.02
42 27 0.53
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (40 bp):
TTTATTAAAATAAAAATACATATTATAAGTATATTAAATA
Found at i:1612994 original size:39 final size:37
Alignment explanation
Indices: 1612926--1613016 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 37
1612916 TATTAAAATA
* **
1612926 AAAATAA-CATATTATTAAGTATATTAATTACT-TATT
1 AAAATAATAATATTATTAAGTATAAAAATTA-TATATT
1612962 AAAATAATAATATTATTAAGCTATTAAAAATTATAATATT
1 AAAATAATAATATTATTAAG-TA-TAAAAATTAT-ATATT
1613002 -AAATAATAATATTAT
1 AAAATAATAATATTAT
1613017 ATTATATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 7 0.15
37 11 0.23
38 3 0.06
39 22 0.47
40 4 0.09
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (37 bp):
AAAATAATAATATTATTAAGTATAAAAATTATATATT
Found at i:1614373 original size:20 final size:21
Alignment explanation
Indices: 1614348--1614389 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1614338 TCATCTAATA
* *
1614348 TAAAAAT-AATTTTTTTATTT
1 TAAAAATCAAGTTTCTTATTT
1614368 TAAAAATCAAGTTTCTTATTT
1 TAAAAATCAAGTTTCTTATTT
1614389 T
1 T
1614390 TGTATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
TAAAAATCAAGTTTCTTATTT
Found at i:1614994 original size:31 final size:30
Alignment explanation
Indices: 1614932--1614996 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
1614922 ATGGATTTAG
* *
1614932 TTAGTGACCAAATTATAAGATTTTAAAAGT
1 TTAGTGACCAAAGTATAAGATTTAAAAAGT
1614962 TTAGTGACCAAAGTATAA-ACTTTAAAAAAGT
1 TTAGTGACCAAAGTATAAGA-TTT-AAAAAGT
1614993 TTAG
1 TTAG
1614997 AGACTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.03
30 20 0.65
31 10 0.32
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (30 bp):
TTAGTGACCAAAGTATAAGATTTAAAAAGT
Found at i:1615274 original size:31 final size:31
Alignment explanation
Indices: 1615214--1615274 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
1615204 TTTACTATTA
* *
1615214 GAAGATGATAAGGCTGAGATGTCTCTGTTTG
1 GAAGATGATAAGGCTGAGATGTATATGTTTG
*
1615245 GAAGATGATAAGGTTGAGATGTATATGTTT
1 GAAGATGATAAGGCTGAGATGTATATGTTT
1615275 AAAGGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.31, T:0.34
Consensus pattern (31 bp):
GAAGATGATAAGGCTGAGATGTATATGTTTG
Found at i:1619315 original size:23 final size:23
Alignment explanation
Indices: 1619257--1619316 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
1619247 GACATTTTAT
*
1619257 ATGGCACTACAGTGCAATTCTAC
1 ATGGCACTTCAGTGCAATTCTAC
*
1619280 --GACACTTCAGTGCAATTCTAC
1 ATGGCACTTCAGTGCAATTCTAC
*
1619301 ATGGCACTTCGGTGCA
1 ATGGCACTTCAGTGCA
1619317 TTTATACGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 19 0.61
23 12 0.39
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
ATGGCACTTCAGTGCAATTCTAC
Found at i:1619804 original size:21 final size:21
Alignment explanation
Indices: 1619771--1619810 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1619761 GAAATTACTG
* * *
1619771 TAGCAGTGTATCGGTACACTA
1 TAGCAATGCATCGATACACTA
1619792 TAGCAATGCATCGATACAC
1 TAGCAATGCATCGATACAC
1619811 ATTTTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGCAATGCATCGATACACTA
Found at i:1623053 original size:33 final size:33
Alignment explanation
Indices: 1623016--1623113 Score: 126
Period size: 33 Copynumber: 2.9 Consensus size: 33
1623006 TTTGGCAAGT
1623016 TGAAAATTTCATCTTGGTTGGTGGCCAACTTAC
1 TGAAAATTTCATCTTGGTTGGTGGCCAACTTAC
* *
1623049 TGAAAATTTCGTCTTGGTTGGTGGCCAACTTAT
1 TGAAAATTTCATCTTGGTTGGTGGCCAACTTAC
* * *
1623082 TGGAAAA-TTAATTTTTGGTAGGTGGCCAACTT
1 T-GAAAATTTCA-TCTTGGTTGGTGGCCAACTT
1623114 TGCACATGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 34 0.60
34 23 0.40
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (33 bp):
TGAAAATTTCATCTTGGTTGGTGGCCAACTTAC
Found at i:1623100 original size:34 final size:33
Alignment explanation
Indices: 1623027--1623113 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 33
1623017 GAAAATTTCA
**
1623027 TCTTGGTTGGTGGCCAACTTACTGAAAATTTCG
1 TCTTGGTTGGTGGCCAACTTACTGAAAATTAAG
* *
1623060 TCTTGGTTGGTGGCCAACTTATTGGAAAATTAAT
1 TCTTGGTTGGTGGCCAACTTACT-GAAAATTAAG
* *
1623094 TTTTGGTAGGTGGCCAACTT
1 TCTTGGTTGGTGGCCAACTT
1623114 TGCACATGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 22 0.47
34 25 0.53
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (33 bp):
TCTTGGTTGGTGGCCAACTTACTGAAAATTAAG
Found at i:1627771 original size:33 final size:32
Alignment explanation
Indices: 1627726--1627822 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 32
1627716 TGGCAATGTT
1627726 GAAATTTCATCTTGGTTGGTGGCCAACTTATTG
1 GAAATTT-ATCTTGGTTGGTGGCCAACTTATTG
* *
1627759 GAAACTTTATCTTGATTGATGGCCAACTTATTG
1 GAAA-TTTATCTTGGTTGGTGGCCAACTTATTG
* *
1627792 GAAAATTAATTTTTGGTAT-GTGGCCAACTTA
1 G-AAATTTA-TCTTGGT-TGGTGGCCAACTTA
1627823 GCACATGGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
33 31 0.57
34 22 0.41
35 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (32 bp):
GAAATTTATCTTGGTTGGTGGCCAACTTATTG
Found at i:1640234 original size:24 final size:24
Alignment explanation
Indices: 1640190--1640235 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1640180 CTGTTCACTT
*
1640190 ATGCATTTATTTATTTATTTATAC
1 ATGCATTTATTTATATATTTATAC
*
1640214 ATGCATTGTATTT-TATCTTTAT
1 ATGCATT-TATTTATATATTTAT
1640236 TTTCAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.59
Consensus pattern (24 bp):
ATGCATTTATTTATATATTTATAC
Found at i:1640988 original size:16 final size:17
Alignment explanation
Indices: 1640963--1641006 Score: 81
Period size: 16 Copynumber: 2.6 Consensus size: 17
1640953 TTCTTCTCTT
1640963 TGATTTTGTGGATATTA
1 TGATTTTGTGGATATTA
1640980 TGA-TTTGTGGATATTA
1 TGATTTTGTGGATATTA
1640996 TGATTTTGTGG
1 TGATTTTGTGG
1641007 TTAGAAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (17 bp):
TGATTTTGTGGATATTA
Found at i:1645940 original size:20 final size:20
Alignment explanation
Indices: 1645895--1645942 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
1645885 TTTTTTATAT
*
1645895 TATTAAATAAAAACTAAAAA
1 TATTACATAAAAACTAAAAA
* *
1645915 TAATTACATAAAAATTAAATA
1 T-ATTACATAAAAACTAAAAA
1645936 TATTACA
1 TATTACA
1645943 AGATATAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
TATTACATAAAAACTAAAAA
Found at i:1651830 original size:203 final size:206
Alignment explanation
Indices: 1651443--1651839 Score: 579
Period size: 203 Copynumber: 1.9 Consensus size: 206
1651433 TTGGGTCAGA
1651443 TTTTTAAGTGTGATATTTAGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAATACCCGATCCAACC
1 TTTTTAAGTGTGATATTTAGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAATACCC-AT-C-ACC
* * *
1651508 CGACCCAAATATATATATAATTTTACCTTATATATTTATGAATAATTACAATAATACCCTTCTAT
63 CGACCCAAATAAATATATAATTTTACCTTATAAATTTAGGAATAATTACAATAATACCCTTCTAT
* * * *
1651573 ATATAATTTTGTTTCAATTAAGTCATTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGA
128 ATATAATTTTGTTTAAATTAAGTCACTGTTTGTATTGAATAAAAATAATTTTTTTACTATTTCGA
1651638 ATCAGGTCGGGTTT
193 ATCAGGTCGGGTTT
* * * * *
1651652 TTTTTAAGTGTGGTATTTGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAATACCC-T-ACCCGG
1 TTTTTAAGTGTGATATTTAGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAATACCCATCACCCGA
*
1651715 CCCAAA-AAATATATAATTTTACCTTATAAATTTAGGAATAATTACAATAATA-TCTCTCTATAT
66 CCCAAATAAATATATAATTTTACCTTATAAATTTAGGAATAATTACAATAATACCCT-TCTATAT
* *
1651778 ATAATTTT-TTTAAATTAAGTCACTGTTTGTATTGAATACAAATACTTTTTTTTACTATTTCG
130 ATAATTTTGTTTAAATTAAGTCACTGTTTGTATTGAATAAAAATA-ATTTTTTTACTATTTCG
1651840 GGTCGGGTCG
Statistics
Matches: 171, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
202 34 0.20
203 73 0.43
204 11 0.06
207 1 0.01
209 52 0.30
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (206 bp):
TTTTTAAGTGTGATATTTAGGTCGGGTCGAGTTCGGGTTTAGAGTGAAAAATACCCATCACCCGA
CCCAAATAAATATATAATTTTACCTTATAAATTTAGGAATAATTACAATAATACCCTTCTATATA
TAATTTTGTTTAAATTAAGTCACTGTTTGTATTGAATAAAAATAATTTTTTTACTATTTCGAATC
AGGTCGGGTTT
Found at i:1653193 original size:17 final size:17
Alignment explanation
Indices: 1653171--1653203 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1653161 TATTTAATAA
1653171 TTAATTTTTAAATATTT
1 TTAATTTTTAAATATTT
*
1653188 TTAATTTTTAACTATT
1 TTAATTTTTAAATATT
1653204 AAAATTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAATTTTTAAATATTT
Found at i:1657840 original size:24 final size:24
Alignment explanation
Indices: 1657812--1657869 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
1657802 TTAGCATGTT
1657812 TGAAAATAAAACTT-AAAATAAAAA
1 TGAAAATAAAACTTGAAAAT-AAAA
*
1657836 TGAAAACAAAAACTTGAAAATAAAA
1 TGAAAA-TAAAACTTGAAAATAAAA
1657861 -GAAAATAAA
1 TGAAAATAAA
1657870 TAATTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.10
24 11 0.37
25 11 0.37
26 5 0.17
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (24 bp):
TGAAAATAAAACTTGAAAATAAAA
Found at i:1657860 original size:25 final size:24
Alignment explanation
Indices: 1657819--1657865 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
1657809 GTTTGAAAAT
1657819 AAAACTTAAAATAAAAATGAAAACA
1 AAAACTTAAAATAAAAA-GAAAACA
1657844 AAAACTTGAAAAT-AAAAGAAAA
1 AAAACTT-AAAATAAAAAGAAAA
1657866 TAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.24
25 11 0.52
26 5 0.24
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAACTTAAAATAAAAAGAAAACA
Found at i:1678103 original size:23 final size:23
Alignment explanation
Indices: 1678077--1678121 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1678067 ATAATAACTA
*
1678077 TATGAGTATATGA-ATATGTGAAT
1 TATGAATA-ATGAGATATGTGAAT
*
1678100 TATGAATAATGAGCTATGTGAA
1 TATGAATAATGAGATATGTGAA
1678122 AGAACTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (23 bp):
TATGAATAATGAGATATGTGAAT
Found at i:1686571 original size:64 final size:64
Alignment explanation
Indices: 1686437--1686601 Score: 156
Period size: 64 Copynumber: 2.5 Consensus size: 64
1686427 TCCTCAATGG
* * * * ** * * *
1686437 GTGTATCAATACACTACCTGTGTATCGGTACCCAAATTACATTCTATGTTTTTATTTTTAAAGG
1 GTGTATCGATACACTAACTGTGTATCGATACACTTATTACATTCGATGTTTTTATTATTAAAGA
* * *
1686501 GGGTATCGATACACTAACTGTGTATCGATACACTTATTGCATTCGATGTTTTCT-TTATTCAAGA
1 GTGTATCGATACACTAACTGTGTATCGATACACTTATTACATTCGATGTTTT-TATTATTAAAGA
1686565 GTGTATCGATAC-CTGTTGAA-TGTGTATCGATACACTT
1 GTGTATCGATACAC---T-AACTGTGTATCGATACACTT
1686602 TGCCGAGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 61 0.73
65 1 0.01
66 18 0.22
67 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (64 bp):
GTGTATCGATACACTAACTGTGTATCGATACACTTATTACATTCGATGTTTTTATTATTAAAGA
Found at i:1689001 original size:8 final size:8
Alignment explanation
Indices: 1688988--1689014 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1688978 ATGGTCTGAT
1688988 TTTAATTA
1 TTTAATTA
1688996 TTTAATTA
1 TTTAATTA
1689004 TTTAATTA
1 TTTAATTA
1689012 TTT
1 TTT
1689015 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTAATTA
Found at i:1691591 original size:17 final size:16
Alignment explanation
Indices: 1691569--1691609 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
1691559 AATTAAAAAT
*
1691569 AATAATATTTTTTACTA
1 AATAATATTGTTTAC-A
1691586 AATAATATTGTTTACA
1 AATAATATTGTTTACA
1691602 AACTAATA
1 AA-TAATA
1691610 AATTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
AATAATATTGTTTACA
Found at i:1694879 original size:65 final size:63
Alignment explanation
Indices: 1694810--1694969 Score: 214
Period size: 65 Copynumber: 2.5 Consensus size: 63
1694800 AAATAAATTG
* *
1694810 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-
1694874 A
63 A
* * * *
1694875 AACATCGAATGCATTTGATGAATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGA
*
1694939 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
1694970 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 29 0.34
65 50 0.59
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGA
Found at i:1694969 original size:17 final size:19
Alignment explanation
Indices: 1694941--1694989 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1694931 TATTTTGAAA
1694941 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1694959 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1694978 CACCGATGCACT
1 CATCGATGCACT
1694990 AAGGGTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:1697364 original size:21 final size:21
Alignment explanation
Indices: 1697338--1697386 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
1697328 ATAAGATTCT
1697338 ATGGAAGTGAAGCGAGAATCC
1 ATGGAAGTGAAGCGAGAATCC
1697359 ATGGAAGTGAAGCGAGAATCC
1 ATGGAAGTGAAGCGAGAATCC
1697380 ATGGAAG
1 ATGGAAG
1697387 CATATCGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.35, T:0.14
Consensus pattern (21 bp):
ATGGAAGTGAAGCGAGAATCC
Found at i:1701041 original size:31 final size:30
Alignment explanation
Indices: 1701006--1701073 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
1700996 GAGCTGCTCA
*
1701006 CGAGCTTCAGTTT-AGGATTTCGAGTTCGAGT
1 CGAGCTTCA-TTTAAAGATTTCGAG-TCGAGT
* *
1701037 CGAGCTTTATTTCAAAGTTTTCGAGTCGAGT
1 CGAGCTTCATTT-AAAGATTTCGAGTCGAGT
1701068 CGAGCT
1 CGAGCT
1701074 CAGCAATACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.09
31 20 0.62
32 9 0.28
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (30 bp):
CGAGCTTCATTTAAAGATTTCGAGTCGAGT
Found at i:1703388 original size:22 final size:21
Alignment explanation
Indices: 1703345--1703384 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1703335 AAGACTATTT
1703345 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
1703366 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
1703385 ATATAGTATT
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:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:1713985 original size:18 final size:18
Alignment explanation
Indices: 1713951--1713985 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1713941 TCGGGTTGAT
*
1713951 CGACCCGACCCGTTGACC
1 CGACCCGACCCGGTGACC
*
1713969 CGACCCGATCCGGTGAC
1 CGACCCGACCCGGTGAC
1713986 ATTCTGGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.46, G:0.26, T:0.11
Consensus pattern (18 bp):
CGACCCGACCCGGTGACC
Found at i:1714023 original size:29 final size:28
Alignment explanation
Indices: 1713981--1714083 Score: 111
Period size: 29 Copynumber: 3.7 Consensus size: 28
1713971 ACCCGATCCG
1713981 GTGACATTCTGGGAATTATTTTTAAAAAT
1 GTGACATTCTGGGAATT-TTTTTAAAAAT
* * *
1714010 GTGATATTTTGGGAATTTTTGTGAAAAAT
1 GTGACATTCTGGGAATTTTT-TTAAAAAT
* *
1714039 GTGACATTCT-GGAATTTTTTT-GAAAG
1 GTGACATTCTGGGAATTTTTTTAAAAAT
* *
1714065 GTGACATTTTGGTAATTTT
1 GTGACATTCTGGGAATTTT
1714084 CGAACGTGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 12 0.19
27 8 0.13
28 12 0.19
29 30 0.48
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (28 bp):
GTGACATTCTGGGAATTTTTTTAAAAAT
Found at i:1721273 original size:10 final size:10
Alignment explanation
Indices: 1721255--1721303 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
1721245 GACCGGTCCA
1721255 AACCGGTCTG
1 AACCGGTCTG
1721265 AACCGGTCTG
1 AACCGGTCTG
*
1721275 -ACCGGTCCG
1 AACCGGTCTG
1721284 AACCGGGT-TG
1 AACC-GGTCTG
1721294 -ACCGGTCTG
1 AACCGGTCTG
1721303 A
1 A
1721304 CTCGACCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 3 0.09
9 13 0.39
10 14 0.42
11 3 0.09
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (10 bp):
AACCGGTCTG
Found at i:1721278 original size:19 final size:19
Alignment explanation
Indices: 1721256--1721303 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1721246 ACCGGTCCAA
1721256 ACCGGTCTGAACC-GGTCTG
1 ACCGGTCTGAACCGGGT-TG
*
1721275 ACCGGTCCGAACCGGGTTG
1 ACCGGTCTGAACCGGGTTG
1721294 ACCGGTCTGA
1 ACCGGTCTGA
1721304 CTCGACCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (19 bp):
ACCGGTCTGAACCGGGTTG
Found at i:1721279 original size:29 final size:28
Alignment explanation
Indices: 1721232--1721304 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
1721222 TAGTTTAATT
1721232 GGTTGACCGG-CTTGACCGGTCCAAACC-
1 GGTTGACCGGTC-TGACCGGTCCAAACCG
*
1721259 GGTCTGAACCGGTCTGACCGGTCCGAACCG
1 GGT-TG-ACCGGTCTGACCGGTCCAAACCG
1721289 GGTTGACCGGTCTGAC
1 GGTTGACCGGTCTGAC
1721305 TCGACCCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 3 0.07
28 13 0.32
29 21 0.51
30 4 0.10
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (28 bp):
GGTTGACCGGTCTGACCGGTCCAAACCG
Found at i:1721280 original size:9 final size:9
Alignment explanation
Indices: 1721256--1721304 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
1721246 ACCGGTCCAA
1721256 ACCGGTCTG
1 ACCGGTCTG
1721265 AACCGGTCTG
1 -ACCGGTCTG
*
1721275 ACCGGTCCG
1 ACCGGTCTG
1721284 AACCGGGT-TG
1 -ACC-GGTCTG
1721294 ACCGGTCTG
1 ACCGGTCTG
1721303 AC
1 AC
1721305 TCGACCCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 3 0.09
9 15 0.44
10 13 0.38
11 3 0.09
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:1721344 original size:18 final size:18
Alignment explanation
Indices: 1721302--1721352 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
1721292 TGACCGGTCT
*
1721302 GACTCGACCCATTGA-CC
1 GACTCGACCCGTTGACCC
*
1721319 GACCCGACCCGTTGACCC
1 GACTCGACCCGTTGACCC
*
1721337 GACTCGACCCGGTGAC
1 GACTCGACCCGTTGAC
1721353 ATTCTGGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.20, C:0.43, G:0.24, T:0.14
Consensus pattern (18 bp):
GACTCGACCCGTTGACCC
Found at i:1721387 original size:17 final size:18
Alignment explanation
Indices: 1721365--1721403 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1721355 TCTGGGAATT
1721365 ATTT-TGAAAAAGGTGAC
1 ATTTGTGAAAAAGGTGAC
*
1721382 ATTTTGTGAAAAATGTGAC
1 A-TTTGTGAAAAAGGTGAC
1721401 ATT
1 ATT
1721404 CTGGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 5 0.26
19 13 0.68
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (18 bp):
ATTTGTGAAAAAGGTGAC
Found at i:1721422 original size:29 final size:30
Alignment explanation
Indices: 1721383--1721443 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
1721373 AAAGGTGACA
1721383 TTTTGTGAAAAATGTGACATTCTGG-AATT
1 TTTTGTGAAAAATGTGACATTCTGGTAATT
* *
1721412 TTTTTTGAAAAATGTGACATTTTGGTAATT
1 TTTTGTGAAAAATGTGACATTCTGGTAATT
1721442 TT
1 TT
1721444 CGAATGTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (30 bp):
TTTTGTGAAAAATGTGACATTCTGGTAATT
Found at i:1726339 original size:29 final size:29
Alignment explanation
Indices: 1726278--1726348 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
1726268 CCCAACCCAT
* ** *
1726278 AGGTCGCCATGCACTCCTAGCGACCTCCT
1 AGGTCGCCATGCACTCCGAGCGACCAACA
* *
1726307 AGGTCGCCATGCACTCCGGGCGACCAAGA
1 AGGTCGCCATGCACTCCGAGCGACCAACA
*
1726336 AGGTTGCCATGCA
1 AGGTCGCCATGCA
1726349 TGCCCGACGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.21, C:0.35, G:0.27, T:0.17
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCGAGCGACCAACA
Found at i:1726539 original size:29 final size:29
Alignment explanation
Indices: 1726506--1726588 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
1726496 AAGGAGACAA
*
1726506 GGTCGCGGGGCGTGCATGGCGACCTCCTT
1 GGTCGCCGGGCGTGCATGGCGACCTCCTT
1726535 GGTCGCCGGGCGTGCATGGCGACCTCCTT
1 GGTCGCCGGGCGTGCATGGCGACCTCCTT
* *
1726564 GGTCGCCCGGAGTGCATGGCGACCT
1 GGTCGCCGGGCGTGCATGGCGACCT
1726589 AGGGCGACCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.08, C:0.33, G:0.40, T:0.19
Consensus pattern (29 bp):
GGTCGCCGGGCGTGCATGGCGACCTCCTT
Found at i:1729703 original size:19 final size:18
Alignment explanation
Indices: 1729660--1729704 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1729650 TTTTTAAAGT
* *
1729660 TTAAAAATTTAAAATTAA
1 TTAAAATTTTAAAATGAA
1729678 TTAAAATTTTAAATATGAA
1 TTAAAATTTTAAA-ATGAA
*
1729697 TTTAAATT
1 TTAAAATT
1729705 GACTCAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAAAATTTTAAAATGAA
Found at i:1735608 original size:29 final size:29
Alignment explanation
Indices: 1735527--1735608 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
1735517 ACCGTTGACC
*
1735527 GGGTGCTATTCTAGTAATTATTTGGAAAA
1 GGGTGCTATTCTAGTAATTATTTTGAAAA
* *
1735556 GGGCGCTATTCTGGTAATTATTTTGAAAA
1 GGGTGCTATTCTAGTAATTATTTTGAAAA
* *
1735585 GGGTGCTATTCTTGTAATTTTTTT
1 GGGTGCTATTCTAGTAATTATTTT
1735609 TTTAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.44
Consensus pattern (29 bp):
GGGTGCTATTCTAGTAATTATTTTGAAAA
Found at i:1735658 original size:27 final size:27
Alignment explanation
Indices: 1735605--1735670 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
1735595 CTTGTAATTT
*
1735605 TTTTTTTAAAAAAAGATAATTTCATAA
1 TTTTTTTAAAAAAAGATAATTTAATAA
* * *
1735632 TTTTTTTAAAAAATGGTATTTTAATAA
1 TTTTTTTAAAAAAAGATAATTTAATAA
* *
1735659 TTATTTTCAAAA
1 TTTTTTTAAAAA
1735671 TGTGATATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (27 bp):
TTTTTTTAAAAAAAGATAATTTAATAA
Found at i:1735679 original size:28 final size:26
Alignment explanation
Indices: 1735641--1735700 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
1735631 ATTTTTTTAA
1735641 AAAATGGTATTTTAATAATTATTTTC
1 AAAATGGTATTTTAATAATTATTTTC
** * *
1735667 AAAATGTGATATTTTGGTAATTGTTTTG
1 AAAATG-G-TATTTTAATAATTATTTTC
1735695 AAAATG
1 AAAATG
1735701 ATGCTACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 1 0.04
28 21 0.75
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (26 bp):
AAAATGGTATTTTAATAATTATTTTC
Done.