Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 30
Found at i:1225270 original size:158 final size:158
Alignment explanation
Indices: 1224978--1225308 Score: 511
Period size: 158 Copynumber: 2.1 Consensus size: 158
1224968 AGTAATTAAT
* * *
1224978 TACCTAGTT-TGTTACATAAGCGCTACCTAATATGTTATTATGTTTGATAATGTTTTCATTAATT
1 TACCTA-TTATGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTTCAGTAATT
*
1225042 AACCAGTTATATTATCATTGGTAACATTTTAAGTGTTTACCTAATATGTTGTAATAACAAATTAA
65 AACCAGTTATATTATCATTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAA
*
1225107 GTAATTAACATATTTTATTATATAAGCGC
130 ATAATTAACATATTTTATTATATAAGCGC
* * *
1225136 TACCTATTATGTTATATAAGTGTTACCTAATATGTTATTGTGCTTGATAATGTTTTCAGTAATTA
1 TACCTATTATGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTTCAGTAATTA
* * * * *
1225201 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTACTAACAAATTAAA
66 ACCAGTTATATTATCATTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAA
*
1225266 TAATTAACTTATTTTATTATATAAGCGC
131 TAATTAACATATTTTATTATATAAGCGC
*
1225294 TACCTAATATGTTAT
1 TACCTATTATGTTAT
1225309 TGTGCTTGAT
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
157 2 0.01
158 155 0.99
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (158 bp):
TACCTATTATGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTTCAGTAATTA
ACCAGTTATATTATCATTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAACAAATTAAA
TAATTAACATATTTTATTATATAAGCGC
Found at i:1225393 original size:135 final size:135
Alignment explanation
Indices: 1225147--1225564 Score: 692
Period size: 135 Copynumber: 3.1 Consensus size: 135
1225137 ACCTATTATG
* * * *
1225147 TTATATAAGTGTTACCTAATATGTTATTGTGCTTGATAATGTTTTCAGTAATTAACCGGTTATGT
1 TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATAACCGGTTATGT
* * *
1225212 TATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTACTAACAAATTAAATAATTAACTTA
66 TATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATA
1225277 TTTTA
131 TTTTA
1225282 TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATAACCGGTTATGT
1 TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATAACCGGTTATGT
* *
1225347 TATCCTTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACCTA
66 TATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATA
***
1225412 TTACG
131 TTTTA
1225417 TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATAACCGGTTATGT
1 TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATAACCGGTTATGT
* *
1225482 TATCCTTGGTAAAATTTTAGACGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATA
66 TATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATA
*
1225547 CTTTA
131 TTTTA
*
1225552 TTATATAAACGCT
1 TTATATAAGCGCT
1225565 TATTGTGCTT
Statistics
Matches: 263, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 263 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (135 bp):
TTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATAACCGGTTATGT
TATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACATA
TTTTA
Found at i:1226509 original size:14 final size:14
Alignment explanation
Indices: 1226490--1226519 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1226480 AACGAACATA
1226490 AATGAACACAAATG
1 AATGAACACAAATG
*
1226504 AATGAACATAAATG
1 AATGAACACAAATG
1226518 AA
1 AA
1226520 CATAAACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (14 bp):
AATGAACACAAATG
Found at i:1226512 original size:24 final size:24
Alignment explanation
Indices: 1226483--1226530 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1226473 AATGATAAAC
*
1226483 GAACATAAATGAACACAAATGAAT
1 GAACATAAATGAACACAAACGAAT
*
1226507 GAACATAAATGAACATAAACGAAT
1 GAACATAAATGAACACAAACGAAT
1226531 ATAAACGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.17
Consensus pattern (24 bp):
GAACATAAATGAACACAAACGAAT
Found at i:1226515 original size:34 final size:34
Alignment explanation
Indices: 1226477--1226549 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
1226467 AATTAAAATG
* * *
1226477 ATAAACGAACATAAATGAACACAAATGAATGAAC
1 ATAAACGAACATAAACGAACACAAACGAACGAAC
* * *
1226511 ATAAATGAACATAAACGAATATAAACGAACGAAC
1 ATAAACGAACATAAACGAACACAAACGAACGAAC
1226545 ATAAA
1 ATAAA
1226550 ATTAATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.15
Consensus pattern (34 bp):
ATAAACGAACATAAACGAACACAAACGAACGAAC
Found at i:1230362 original size:29 final size:30
Alignment explanation
Indices: 1230308--1230397 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 30
1230298 TTTAAGTTTT
*
1230308 AAAC-ATTATAAAATGATCATT-AATTTATC
1 AAACTATTACAAAAT-ATCATTAAATTTATC
1230337 AAAACTATTACAAAAT-T-ATTAAATTTTATC
1 -AAACTATTACAAAATATCATTAAA-TTTATC
*
1230367 AAACTGTTACAAAATAGTCATTAAATTTATC
1 AAACTATTACAAAATA-TCATTAAATTTATC
1230398 TATCTTTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
28 3 0.06
29 17 0.33
30 10 0.19
31 16 0.31
32 6 0.12
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (30 bp):
AAACTATTACAAAATATCATTAAATTTATC
Found at i:1235725 original size:18 final size:19
Alignment explanation
Indices: 1235702--1235742 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1235692 AATATATTTA
*
1235702 AAAACA-ATAAAATAAATG
1 AAAACATATAAAATAAACG
1235720 AAAACATATAAAATAAACG
1 AAAACATATAAAATAAACG
1235739 AAAA
1 AAAA
1235743 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAACATATAAAATAAACG
Found at i:1236439 original size:11 final size:12
Alignment explanation
Indices: 1236418--1236444 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1236408 CTCTTCTTCC
1236418 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1236430 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1236442 TTT
1 TTT
1236445 CTTGGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:1237070 original size:3 final size:3
Alignment explanation
Indices: 1237051--1237094 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
1237041 TTAATATATT
*
1237051 TAA T-A TAA TAG TAA TAA TAA T-A TAA TAA T-A TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1237095 TGGATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1237536 original size:113 final size:113
Alignment explanation
Indices: 1237338--1237951 Score: 1026
Period size: 113 Copynumber: 5.5 Consensus size: 113
1237328 ATAAGCTCTT
*
1237338 GATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGATGATCCATCAAATGATGAATTCAGGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTA
1237403 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
1237451 GATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTA
*
1237516 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
1237564 GATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGATGATCCACCAAATGATGGATTCAGGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTA
*
1237629 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCG
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
1237677 GATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAA---AGGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTA
1237739 AAA-GTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
1237785 GATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAGATGATCCACCAAATGATGGATTCAGGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTA
*
1237849 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCG
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
1237897 GATGAGTTCTTCTCATTATGAACTCTT-TCTGGAAAAGCTGATCCATCAAATGATG
1 GATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAATGATG
1237952 GATTTGAATC
Statistics
Matches: 466, Mismatches: 28, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
107 20 0.04
108 47 0.10
109 26 0.06
110 16 0.03
111 26 0.06
112 45 0.10
113 286 0.61
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGAATTCAGGTA
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
Found at i:1238822 original size:81 final size:81
Alignment explanation
Indices: 1238687--1239620 Score: 1477
Period size: 81 Copynumber: 11.5 Consensus size: 81
1238677 CCTACTGAAT
* * *
1238687 CAGATCAAATAATTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
* *
1238752 ATTGGTTTTATCAAAC
66 ATTGGTTCTGTCAAAC
*
1238768 CAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTA-TGAACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACATTCATCTTCCAAATTCAAT
* *
1238832 GCTTGGTTCTGTCCAAC
65 GATTGGTTCTGTCAAAC
1238849 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
* *
1238914 ATTGGTTTTATCAAAC
66 ATTGGTTCTGTCAAAC
1238930 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACATTCATCTTCCAAATTCAAT
* *
1238994 GCTTGGTTCTGTCCAAC
65 GATTGGTTCTGTCAAAC
1239011 CAGATCAGATAACTC-AAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
* *
1239075 ATTGGTTTTATCAAAC
66 ATTGGTTCTGTCAAAC
1239091 CAGATCAGATAACTCAAAG---ACTTCCAGAAGATGCTA-TGAACATTCATCTTCCAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACATTCATCTTCCAAATTCAAT
* *
1239152 GCTTGGTTCTGTCCAAC
65 GATTGGTTCTGTCAAAC
1239169 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
* *
1239234 ATTGGTTTTATCAAAC
66 ATTGGTTCTGTCAAAC
** *
1239250 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCATTCATCTTATATATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA--CATTCATCTTCCAAATTCAA
*
1239315 TGATTGGTTCTGTCTAAC
64 TGATTGGTTCTGTCAAAC
*
1239333 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCTAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
*
1239398 ATTGGTTCTGTCTAAC
66 ATTGGTTCTGTCAAAC
** *
1239414 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCATTCATCTTATATATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA--CATTCATCTTCCAAATTCAA
*
1239479 TGATTGGTTCTGTCTAAC
64 TGATTGGTTCTGTCAAAC
*
1239497 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCTAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
*
1239562 ATTGGTTCTGTCTAAC
66 ATTGGTTCTGTCAAAC
*
1239578 CAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA
1239621 GCCCATATAA
Statistics
Matches: 791, Mismatches: 48, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
77 2 0.00
78 71 0.09
80 76 0.10
81 486 0.61
82 4 0.01
83 152 0.19
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (81 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
ATTGGTTCTGTCAAAC
Found at i:1239623 original size:164 final size:162
Alignment explanation
Indices: 1238687--1239617 Score: 1573
Period size: 164 Copynumber: 5.7 Consensus size: 162
1238677 CCTACTGAAT
* * *
1238687 CAGATCAAATAATTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
*
1238752 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGAACATTCA
66 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATTCA
1238817 TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
131 TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
1238849 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1238914 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATTCA
66 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATTCA
1238979 TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
131 TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
1239011 CAGATCAGATAACTC-AAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1239075 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAG---ACTTCCAGAAGATGCTATGAACATTCA
66 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATTCA
1239137 TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
131 TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
1239169 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
*
1239234 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCATT
66 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-ACATT
** * * *
1239299 CATCTTATATATTCAATGATTGGTTCTGTCTAAC
129 CATCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
*
1239333 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCTAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
* * * *
1239398 ATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCATT
66 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA-ACATT
** * * *
1239463 CATCTTATATATTCAATGATTGGTTCTGTCTAAC
129 CATCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
*
1239497 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCTAATTCAATG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
* * * *
1239562 ATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTAT
66 ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1239618 TGAGCCCATA
Statistics
Matches: 748, Mismatches: 15, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
158 74 0.10
159 84 0.11
161 84 0.11
162 190 0.25
163 4 0.01
164 312 0.42
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (162 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCCAAATTCAATG
ATTGGTTTTATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACATTCA
TCTTCCAAATTCAATGCTTGGTTCTGTCCAAC
Found at i:1240210 original size:19 final size:20
Alignment explanation
Indices: 1240186--1240227 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
1240176 AATAGAAAAG
*
1240186 AATAAATTGAATTTCCAA-A
1 AATAAATTGAATCTCCAATA
1240205 AATAAATTGAATCTCCAATA
1 AATAAATTGAATCTCCAATA
1240225 AAT
1 AAT
1240228 TGAACTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAAATTGAATCTCCAATA
Found at i:1240575 original size:17 final size:17
Alignment explanation
Indices: 1240555--1240587 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1240545 CCTGACCCTC
1240555 TTTTT-CTTTTTTTTTT
1 TTTTTCCTTTTTTTTTT
1240571 TTTTTCCTTTTTTTTTT
1 TTTTTCCTTTTTTTTTT
1240588 AATTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTCCTTTTTTTTTT
Found at i:1245480 original size:157 final size:158
Alignment explanation
Indices: 1245194--1245509 Score: 625
Period size: 157 Copynumber: 2.0 Consensus size: 158
1245184 AGCATTCCTA
1245194 TGCGCTTCTGAATTCATCAATAGATCAAGAATAGAATTCTCGCTTGTTGTTTGTGTAGTTGTTCA
1 TGCGCTTCTGAATTCATCAATAGATCAAGAATAGAATTCTCGCTTGTTGTTTGTGTAGTTGTTCA
1245259 ACCACACTATACTCACTATGTTTCAGGAATTTCAAAAATTCTTGAGCTTGTTTTTCTGTCACAGG
66 ACCACACTATACTCACTATGTTTCAGGAATTTCAAAAATTCTTGAGCTTGTTTTTCTGTCACAGG
1245324 CTC-TTGAATGCTGGAAGGGATTCATCT
131 CTCATTGAATGCTGGAAGGGATTCATCT
1245351 TGCGCTTCTGAATTCATCAATAGATCAAGAATAGAATTCTCGCTTGTTGTTTGTGTAGTTGTTCA
1 TGCGCTTCTGAATTCATCAATAGATCAAGAATAGAATTCTCGCTTGTTGTTTGTGTAGTTGTTCA
1245416 ACCACACTATACTCACTATGTTTCAGGAATTTCAAAAATTCTTGAGCTTGTTTTTCTGTCACAGG
66 ACCACACTATACTCACTATGTTTCAGGAATTTCAAAAATTCTTGAGCTTGTTTTTCTGTCACAGG
1245481 CTCATTGAATGCTGGAAGGGATTCATCT
131 CTCATTGAATGCTGGAAGGGATTCATCT
1245509 T
1 T
1245510 CAAATACCTT
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 133 0.84
158 25 0.16
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (158 bp):
TGCGCTTCTGAATTCATCAATAGATCAAGAATAGAATTCTCGCTTGTTGTTTGTGTAGTTGTTCA
ACCACACTATACTCACTATGTTTCAGGAATTTCAAAAATTCTTGAGCTTGTTTTTCTGTCACAGG
CTCATTGAATGCTGGAAGGGATTCATCT
Found at i:1251780 original size:19 final size:18
Alignment explanation
Indices: 1251750--1251798 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
1251740 ACAATATTTT
*
1251750 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAACG
1251768 AAAACATATAAAATAAACG
1 AAAACA-ATAAAATAAACG
1251787 AAAA-AATAAAAT
1 AAAACAATAAAAT
1251799 TAAAATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAACAATAAAATAAACG
Found at i:1252617 original size:29 final size:29
Alignment explanation
Indices: 1252583--1252679 Score: 126
Period size: 29 Copynumber: 3.3 Consensus size: 29
1252573 AGTTTGTATT
1252583 TTCTCTGTTTTTTTTTCTATGTCTCTCTA
1 TTCTCTGTTTTTTTTTCTATGTCTCTCTA
1252612 TTCTCTGTTTTTTTTTCTATGTCTCTCTA
1 TTCTCTGTTTTTTTTTCTATGTCTCTCTA
* *
1252641 -TCT-TTTTTTTTTTCTCTCTGTCTCGTTCTA
1 TTCTCTGTTTTTTTT-TCTATGTCTC--TCTA
1252671 TATCTCTGT
1 T-TCTCTGT
1252680 CCTCTTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
27 9 0.15
28 12 0.20
29 29 0.49
30 4 0.07
32 3 0.05
33 2 0.03
ACGTcount: A:0.06, C:0.22, G:0.07, T:0.65
Consensus pattern (29 bp):
TTCTCTGTTTTTTTTTCTATGTCTCTCTA
Found at i:1253181 original size:3 final size:3
Alignment explanation
Indices: 1253173--1253214 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1253163 TAATATATTT
1253173 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1253215 TGGATAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1255814 original size:22 final size:22
Alignment explanation
Indices: 1255786--1255858 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
1255776 CACGCTAAAT
1255786 GCTGAACGGTTCAGCATTCAGC
1 GCTGAACGGTTCAGCATTCAGC
* *
1255808 GCTGAACGATTCAGCATTCAAC
1 GCTGAACGGTTCAGCATTCAGC
* *
1255830 GTTGAACGGTTCACCATTCAGC
1 GCTGAACGGTTCAGCATTCAGC
1255852 GCTGAAC
1 GCTGAAC
1255859 AAATAGACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (22 bp):
GCTGAACGGTTCAGCATTCAGC
Found at i:1256244 original size:24 final size:24
Alignment explanation
Indices: 1256217--1256269 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1256207 TTTATTTTAT
1256217 TTATTTTTAA-ATGATTAAAATAAA
1 TTATTTTTAAGATG-TTAAAATAAA
* *
1256241 TTATTTTTAAGATGTTAGATTAAA
1 TTATTTTTAAGATGTTAAAATAAA
1256265 TTATT
1 TTATT
1256270 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (24 bp):
TTATTTTTAAGATGTTAAAATAAA
Found at i:1257360 original size:22 final size:22
Alignment explanation
Indices: 1257332--1257374 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1257322 CAGCCGGTCC
1257332 TGCTGATGACGTCTCCTGCCCT
1 TGCTGATGACGTCTCCTGCCCT
1257354 TGCTGATGACGTCTCCTGCCC
1 TGCTGATGACGTCTCCTGCCC
1257375 CTGTAGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.37, G:0.23, T:0.30
Consensus pattern (22 bp):
TGCTGATGACGTCTCCTGCCCT
Found at i:1270967 original size:18 final size:18
Alignment explanation
Indices: 1270944--1271009 Score: 132
Period size: 18 Copynumber: 3.7 Consensus size: 18
1270934 CAGCTTGGAG
1270944 TGATGAAGATGACTCCAA
1 TGATGAAGATGACTCCAA
1270962 TGATGAAGATGACTCCAA
1 TGATGAAGATGACTCCAA
1270980 TGATGAAGATGACTCCAA
1 TGATGAAGATGACTCCAA
1270998 TGATGAAGATGA
1 TGATGAAGATGA
1271010 AGTAGCCAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (18 bp):
TGATGAAGATGACTCCAA
Found at i:1271273 original size:41 final size:40
Alignment explanation
Indices: 1271214--1271293 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 40
1271204 AAAAAATTGA
*
1271214 CTTTGAAAAGCAAAATGAATCTTTAAAAAATGATTTAGAG
1 CTTTCAAAAGCAAAATGAATCTTTAAAAAATGATTTAGAG
*
1271254 CTTTCAAAAGTCAAAATGAATCTTTGAAAAATGATTTAGA
1 CTTTCAAAAG-CAAAATGAATCTTTAAAAAATGATTTAGA
1271294 AAAAGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 9 0.24
41 28 0.76
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (40 bp):
CTTTCAAAAGCAAAATGAATCTTTAAAAAATGATTTAGAG
Found at i:1272329 original size:2 final size:2
Alignment explanation
Indices: 1272312--1272390 Score: 87
Period size: 2 Copynumber: 41.5 Consensus size: 2
1272302 CCTCTAATGT
* * *
1272312 TA TA T- TA TA CA TA TA TA TG T- TT TA TCA TA T- TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
1272351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1272391 TGTTTATTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
1 5 0.07
2 60 0.90
3 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1273612 original size:17 final size:19
Alignment explanation
Indices: 1273582--1273652 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 19
1273572 TTTTATTTTT
*
1273582 TTATGT-TTACTATTATT-
1 TTATGTATTATTATTATTC
1273599 TTAT-TATTATTATT-TTC
1 TTATGTATTATTATTATTC
1273616 TTATGTATATATATATATATTC
1 TTATGTAT-TAT-TAT-TATTC
*
1273638 TT-TTTATTTATTATT
1 TTATGTA-TTATTATT
1273653 TTGTCTTCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
16 3 0.07
17 15 0.34
18 3 0.07
19 4 0.09
20 6 0.14
21 7 0.16
22 6 0.14
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (19 bp):
TTATGTATTATTATTATTC
Found at i:1273923 original size:34 final size:32
Alignment explanation
Indices: 1273862--1273925 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
1273852 ATTCTTGCTT
1273862 TATTTTTATTTTCTCCTTATGTTTTTTTTTTA
1 TATTTTTATTTTCTCCTTATGTTTTTTTTTTA
* *
1273894 TATTTTTAATTTTTTTCCTTAT-TTATTTTTTT
1 TATTTTT-A-TTTTCTCCTTATGTTTTTTTTTT
1273926 CATTTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 7 0.25
33 10 0.36
34 11 0.39
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (32 bp):
TATTTTTATTTTCTCCTTATGTTTTTTTTTTA
Found at i:1273931 original size:32 final size:32
Alignment explanation
Indices: 1273863--1273935 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 32
1273853 TTCTTGCTTT
* *
1273863 ATTTTTATTTTCTCCTTATGTTTTTTTTTTAT
1 ATTTTTATTTTCTCCTTATGTTATTTTTTTAC
*
1273895 ATTTTTAATTTTTTTCCTTAT-TTATTTTTTT-C
1 ATTTTT-A-TTTTCTCCTTATGTTATTTTTTTAC
1273927 A-TTTTATTT
1 ATTTTTATTT
1273936 GATGTTTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 3 0.08
30 1 0.03
31 4 0.11
32 7 0.19
33 10 0.28
34 11 0.31
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.75
Consensus pattern (32 bp):
ATTTTTATTTTCTCCTTATGTTATTTTTTTAC
Found at i:1273977 original size:28 final size:28
Alignment explanation
Indices: 1273916--1273989 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
1273906 TTTTCCTTAT
* *
1273916 TTATTTTTTTCATTTTATTTGATGTTTG
1 TTATGTTTTTCATTTTATTTGATGTTTC
1273944 TT-TGTTTTATCATTTTATTTG-T-TTTCC
1 TTATGTTTT-TCATTTTATTTGATGTTT-C
1273971 TTATGTTATTT-ATTTTATT
1 TTATGTT-TTTCATTTTATT
1273990 ATCATTTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 3 0.08
27 16 0.40
28 19 0.47
29 2 0.05
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (28 bp):
TTATGTTTTTCATTTTATTTGATGTTTC
Found at i:1285416 original size:105 final size:105
Alignment explanation
Indices: 1285231--1286372 Score: 1705
Period size: 106 Copynumber: 10.9 Consensus size: 105
1285221 CAAGATAACA
* * *
1285231 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-A-AA-----CAATTTCGGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
1285289 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1285329 CAAGTTCAACTTCACGATGAAGGGACCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
*
1285394 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATG
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
1285434 TAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAAAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
*
1285499 TTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAAC-
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
1285538 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGTCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
* *
1285603 TTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACA
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
1285643 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
*
1285708 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
1285748 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGCCA
1285813 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
65 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
1285854 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGCCA
*
1285919 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACG
65 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
**
1285960 CAAGTTCAACTTCACGACGAAGGGACCAG-TGGTTGTCAACAAACAACTTATCAATTTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACC-GCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCC
* * * *
1286024 AATTTCAACTTCACAGTGAAGGATATTGAACTCCAGACGATG
64 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1286066 CAAGTTCAACTTCACGACGAAGGGACC-CTGGTTGTCAACAAACAACTTCTCAATTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* *
1286130 ATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACG
65 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
1286171 CAAGTTCAACTTCACAACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* * *
1286236 ATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACA
65 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
1286277 CAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAACCAATTTTCCAGTTCCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAA-CAACTTCCCAATTTCAGAGCC
*
1286341 AATTTCAACTTCAC-GACGGAGGATATTGGACT
64 AATTTCAACTTCACAG-CGAAGGATATTGGACT
1286373 TGGAAGGGGC
Statistics
Matches: 960, Mismatches: 68, Indels: 24
0.91 0.06 0.02
Matches are distributed among these distances:
98 36 0.04
99 1 0.00
100 2 0.00
104 100 0.10
105 385 0.40
106 436 0.45
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:1286001 original size:317 final size:314
Alignment explanation
Indices: 1285231--1286372 Score: 1710
Period size: 317 Copynumber: 3.6 Consensus size: 314
1285221 CAAGATAACA
* * * *
1285231 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC---AACAA----ACAATTTCGGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTTCCCAATTTCAGAGCCAA
* *
1285289 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGA
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA
* *
1285354 CCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
131 CCACTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * *
1285419 GGACTCCAGACAATGTAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAACAACTTCC
196 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTT-C
* *
1285484 CAATTTCAAAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAAC-
260 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1285538 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGTCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTTCCCAATTTCAGAGCCAA
*
1285603 TTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA
66 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA
*
1285668 CCGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
131 CCACTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * *
1285733 GGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTC
196 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAACTTC
1285798 CAAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
260 C-AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1285854 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAACTTCCCAATTTCAGAGCCA
* *
1285919 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACGACGCAAGTTCAACTTCACGACGAAGGG
65 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGG
* * **
1285984 ACCAGTGGTTGTCAACAAACAACTTATCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATA
130 ACCACTGGTTGTCAAC-AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* *
1286049 TTGAACTCCAGACGATGCAAGTTCAACTTCACGACGAAGGGACC-CTGGTTGTCAACAAACAACT
194 TTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAACT
* * *
1286113 TCTCAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACG
258 TC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
1286171 CAAGTTCAACTTCACAACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAACCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAACTTCCCAATTTCAGAGCCA
* * *
1286236 ATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACACAAGTTCAACTTCACAACGAAGGG
65 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGG
* * * * * *
1286301 ACGACTGGTTGTCAACAACCAA-TTTTCCAGTTCCAGAGCCAATTTCAACTTCACGACGGAGGAT
130 ACCACTGGTTGTCAACAA-CAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
1286365 ATTGGACT
193 ATTGGACT
1286373 TGGAAGGGGC
Statistics
Matches: 758, Mismatches: 62, Indels: 20
0.90 0.07 0.02
Matches are distributed among these distances:
307 35 0.05
310 5 0.01
314 189 0.25
315 58 0.08
316 43 0.06
317 342 0.45
318 86 0.11
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (314 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTTCCCAATTTCAGAGCCAA
TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA
CCACTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTTCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:1286914 original size:2 final size:2
Alignment explanation
Indices: 1286897--1286960 Score: 57
Period size: 2 Copynumber: 34.0 Consensus size: 2
1286887 CCTCTAATGT
* * *
1286897 TA TA T- TA TA CA TA TA TA TG T- TT TA TCA TA T- TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
1286936 TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1286961 ATTTATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
1 5 0.10
2 45 0.87
3 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1299038 original size:18 final size:17
Alignment explanation
Indices: 1298984--1299032 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1298974 TTGGACCCTT
* *
1298984 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1299002 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1299020 AGTGCATTCGATG
1 AGTGCA-TCGATG
1299033 TTTCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1299128 original size:65 final size:64
Alignment explanation
Indices: 1299004--1299129 Score: 182
Period size: 65 Copynumber: 1.9 Consensus size: 64
1298994 TGCACTAAGA
* * *
1299004 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAATAACCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAAAT-ACCACAGTGCATCGATGCATGGCTG
*
1299069 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAT-CCTCAGTGCATCGATGCATG
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAAATACCACAGTGCATCGATGCATG
1299130 AAATGCATTC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
65 45 0.82
66 5 0.09
67 5 0.09
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAAATACCACAGTGCATCGATGCATGGCTG
Found at i:1300006 original size:17 final size:17
Alignment explanation
Indices: 1299984--1300025 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1299974 AATCTCCCCT
*
1299984 TTTTGATATAACAAAAC
1 TTTTGAAATAACAAAAC
1300001 TTTTGAAATAACAAAAC
1 TTTTGAAATAACAAAAC
1300018 TTTTGAAA
1 TTTTGAAA
1300026 AATTGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (17 bp):
TTTTGAAATAACAAAAC
Found at i:1304423 original size:25 final size:24
Alignment explanation
Indices: 1304395--1304466 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
1304385 ATATTTATTT
*
1304395 TTAAATAAAAATAAAAAAATTTAAA
1 TTAAATAAAAATAAAAATATTT-AA
* *
1304420 TTAAGTCAATAATAAAATATATTTAA
1 TTAAAT-AAAAATAAAA-ATATTTAA
* *
1304446 -TAAATTAATATAAAAATATTT
1 TTAAATAAAAATAAAAATATTT
1304467 TTAAGTTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
23 6 0.16
24 7 0.18
25 9 0.24
26 11 0.29
27 5 0.13
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (24 bp):
TTAAATAAAAATAAAAATATTTAA
Found at i:1304469 original size:25 final size:26
Alignment explanation
Indices: 1304433--1304491 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
1304423 AGTCAATAAT
*
1304433 AAAATATATTTAA-TAAAT-TAATATA
1 AAAATATTTTTAAGTAAATAT-ATATA
*
1304458 AAAATATTTTTAAGTTAATATATATA
1 AAAATATTTTTAAGTAAATATATATA
1304484 AAAATATT
1 AAAATATT
1304492 ATGAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 12 0.40
26 17 0.57
27 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATATTTTTAAGTAAATATATATA
Found at i:1304475 original size:22 final size:24
Alignment explanation
Indices: 1304419--1304479 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
1304409 AAAAATTTAA
*
1304419 ATTAAGTCAATAATAAAATATATTT
1 ATTAAGTTAAT-ATAAAATATATTT
* *
1304444 AATAAATTAATATAAAA-ATATTT
1 ATTAAGTTAATATAAAATATATTT
1304467 -TTAAGTTAATATA
1 ATTAAGTTAATATA
1304480 TATAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 11 0.35
23 6 0.19
24 6 0.19
25 8 0.26
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (24 bp):
ATTAAGTTAATATAAAATATATTT
Found at i:1304501 original size:26 final size:27
Alignment explanation
Indices: 1304453--1304510 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
1304443 TAATAAATTA
* *
1304453 ATATAAAAATATTTTTAAGTTAA-TAT
1 ATATAAAAATATTATGAAGTTAAGTAT
*
1304479 ATATAAAAATATTATGAATTTAAGTAT
1 ATATAAAAATATTATGAAGTTAAGTAT
*
1304506 TTATA
1 ATATA
1304511 CGTTAAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (27 bp):
ATATAAAAATATTATGAAGTTAAGTAT
Found at i:1307789 original size:9 final size:9
Alignment explanation
Indices: 1307777--1307801 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1307767 TTTTTCTTGT
1307777 TTTATTTAA
1 TTTATTTAA
1307786 TTTATTTAA
1 TTTATTTAA
1307795 TTTATTT
1 TTTATTT
1307802 TACCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTTAA
Found at i:1307914 original size:4 final size:4
Alignment explanation
Indices: 1307907--1308014 Score: 67
Period size: 4 Copynumber: 25.2 Consensus size: 4
1307897 TTTATATATT
*
1307907 TTTA TTTA TTCCT- TTTA TTATT TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TT--TA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
** * * *
1307957 TTTTCA TTGC TTTA TCTTA TCTTA TTTT TTTA CTTTC TTT- TTTA GATTA
1 -TTT-A TTTA TTTA T-TTA T-TTA TTTA TTTA -TTTA TTTA TTTA -TTTA
1308006 TTTA TTTA T
1 TTTA TTTA T
1308015 CTAGTTTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
3 4 0.05
4 52 0.63
5 25 0.30
6 2 0.02
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:1307931 original size:9 final size:10
Alignment explanation
Indices: 1307895--1307960 Score: 57
Period size: 10 Copynumber: 6.4 Consensus size: 10
1307885 TAAACACTTT
*
1307895 TTTTTATATA
1 TTTTTATTTA
1307905 TTTTTATTTA
1 TTTTTATTTA
1307915 TTCCTTT-TATTA
1 TT--TTTAT-TTA
1307927 TTTTTATTTA
1 TTTTTATTTA
1307937 --TTTATTTA
1 TTTTTATTTA
1307945 TTTATTTATTTA
1 -TT-TTTATTTA
1307957 TTTT
1 TTTT
1307961 CATTGCTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
8 8 0.17
10 19 0.40
11 4 0.09
12 16 0.34
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:1307944 original size:12 final size:12
Alignment explanation
Indices: 1307907--1308014 Score: 67
Period size: 13 Copynumber: 8.4 Consensus size: 12
1307897 TTTATATATT
1307907 TTTATTTATTCCT-
1 TTTATTTATT--TA
*
1307920 TTTATTATTTTTA
1 TTTATT-TATTTA
1307933 TTTATTTATTTA
1 TTTATTTATTTA
1307945 TTTATTTATTTA
1 TTTATTTATTTA
**
1307957 TTTTCATTGCTTTA
1 -TTT-ATTTATTTA
*
1307971 TCTTATCTTATTTT
1 T-TTAT-TTATTTA
*
1307985 TTTACTTTCTTT-
1 TTTA-TTTATTTA
*
1307997 TTTAGATTATTTA
1 TTTA-TTTATTTA
1308010 TTTAT
1 TTTAT
1308015 CTAGTTTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
12 27 0.36
13 30 0.40
14 18 0.24
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTATTTATTTA
Found at i:1318103 original size:14 final size:14
Alignment explanation
Indices: 1318062--1318119 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
1318052 ACCCTAAATT
1318062 GAAAAAAAGAGAAAA
1 GAAAAAAAGA-AAAA
* *
1318077 -AAGAACAATGAAAAT
1 GAA-AA-AAAGAAAAA
*
1318092 GAAAAAGAGAAAAA
1 GAAAAAAAGAAAAA
1318106 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
1318120 ATAATAAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 21 0.62
15 7 0.21
16 6 0.18
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:1318109 original size:20 final size:20
Alignment explanation
Indices: 1318072--1318110 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1318062 GAAAAAAAGA
*
1318072 GAAAAAAGAACAATGAAAAT
1 GAAAAAAGAACAAAGAAAAT
1318092 GAAAAAGAGAA-AAAGAAAA
1 GAAAAA-AGAACAAAGAAAA
1318111 AAAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (20 bp):
GAAAAAAGAACAAAGAAAAT
Found at i:1318117 original size:28 final size:28
Alignment explanation
Indices: 1318065--1318118 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1318055 CTAAATTGAA
* *
1318065 AAAAAGAGAAAAAAGAACAATGAAAATG
1 AAAAAGAGAAAAAAGAAAAAAGAAAATG
1318093 AAAAAGAG-AAAAAGAAAAAAAGAAAA
1 AAAAAGAGAAAAAAG-AAAAAAGAAAA
1318119 AATAATAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.04
Consensus pattern (28 bp):
AAAAAGAGAAAAAAGAAAAAAGAAAATG
Found at i:1319032 original size:65 final size:65
Alignment explanation
Indices: 1318928--1319170 Score: 273
Period size: 65 Copynumber: 3.8 Consensus size: 65
1318918 CGAAGCGACA
* * *
1318928 CAATTTACTCGAGATTGGATTTTAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGATG
1 CAATTTACCCGAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTG
* * * *
1318993 CAATTTACCCGAGATTGGATTTTAACTTCACAATGAAGGACATCCAAATCAAAGCCAATTTGGTG
1 CAATTTACCCGAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTG
* *** * *
1319058 -AAGCTTACTTAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAACCCAATTTGGT
1 CAA-TTTACCCGAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGT
1319122 -
65 G
*** * *
1319122 CAAACAATCC----TTGGATTTCAACTTCACAAAGAAGGATATCCAACTCAAA
1 CAATTTACCCGAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAA
1319171 ACTCAACTTC
Statistics
Matches: 153, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
60 37 0.24
64 3 0.02
65 113 0.74
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (65 bp):
CAATTTACCCGAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTG
Found at i:1321113 original size:29 final size:31
Alignment explanation
Indices: 1321081--1321150 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
1321071 CTTCTCCTTA
1321081 TTTTATTTAAACATTTTTTA-TATTTGT-TT
1 TTTTATTTAAACATTTTTTATTATTTGTATT
** * *
1321110 TTTTATTTATTCCTTTTTTATTATTTTTATT
1 TTTTATTTAAACATTTTTTATTATTTGTATT
1321141 TATTTATTTA
1 T-TTTATTTA
1321151 TTTACTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.50
30 6 0.18
31 3 0.09
32 8 0.24
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (31 bp):
TTTTATTTAAACATTTTTTATTATTTGTATT
Found at i:1321120 original size:4 final size:4
Alignment explanation
Indices: 1321101--1321245 Score: 87
Period size: 4 Copynumber: 34.5 Consensus size: 4
1321091 ACATTTTTTA
* * ** *
1321101 TATT TGTT TTTT TATT TATT CCTT T-TT TATT ATTTT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT -TATT TATT TATT TATT
* **
1321149 TATT TACT TACTT TATT TATT TATT TATTT TATT T-TT TCATT GCTT TATCT
1 TATT TATT TA-TT TATT TATT TATT TA-TT TATT TATT T-ATT TATT TAT-T
* * * *
1321200 TATTT TATTT TATT TCTT TATTT TCTT TTTT TAGAT TATT TATT TA
1 TA-TT TA-TT TATT TATT TA-TT TATT TATT TA-TT TATT TATT TA
1321246 CCTAATTTGT
Statistics
Matches: 110, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
3 6 0.05
4 74 0.67
5 29 0.26
6 1 0.01
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:1321180 original size:13 final size:13
Alignment explanation
Indices: 1321101--1321245 Score: 84
Period size: 13 Copynumber: 10.8 Consensus size: 13
1321091 ACATTTTTTA
*
1321101 TATTTGTTT-TTT
1 TATTTATTTATTT
*
1321113 TATTTATTCCTTTTT
1 TATTTATT--TATTT
*
1321128 TA-TTATTTTTATT
1 TATTTATTTAT-TT
1321141 TATTTATTTA-TT
1 TATTTATTTATTT
*
1321153 TACTTACTTTA-TT
1 TATTTA-TTTATTT
1321166 TATTTATTTATTT
1 TATTTATTTATTT
1321179 TATTT-TTTCATTGCTT
1 TATTTATTT-A-T--TT
1321195 TATCTTATTTTATTT
1 TAT-TTA-TTTATTT
*
1321210 TATTTCTTTATTT
1 TATTTATTTATTT
* * **
1321223 TCTTTTTTTAGAT
1 TATTTATTTATTT
1321236 TATTTATTTA
1 TATTTATTTA
1321246 CCTAATTTGT
Statistics
Matches: 108, Mismatches: 11, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
12 24 0.22
13 47 0.44
14 15 0.14
15 10 0.09
16 5 0.05
17 3 0.03
18 1 0.01
19 3 0.03
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:1322808 original size:22 final size:22
Alignment explanation
Indices: 1322758--1322802 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1322748 TTGAGTAAAC
*
1322758 TTATATAAAATTTATAAAAATT
1 TTATAGAAAATTTATAAAAATT
1322780 TTATAGAAAATATT-TAAAAATT
1 TTATAGAAAAT-TTATAAAAATT
1322802 T
1 T
1322803 GTTAGATCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTATAGAAAATTTATAAAAATT
Found at i:1324453 original size:27 final size:26
Alignment explanation
Indices: 1324423--1324511 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 26
1324413 CATAAAATAT
1324423 ATATTTTTAAATACAAATAAAAATAAA
1 ATATTTTTAAATA-AAATAAAAATAAA
* ** *
1324450 ATATTTTAAAATTAAGTTAATAATAAA
1 ATATTTTTAAA-TAAAATAAAAATAAA
* * *
1324477 ATATATTT-AAT-AAATTAATATAAAA
1 ATATTTTTAAATAAAATAAAAAT-AAA
1324502 ATATTTTTAA
1 ATATTTTTAA
1324512 GTTAATATAT
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
24 5 0.11
25 11 0.23
26 3 0.06
27 26 0.55
28 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (26 bp):
ATATTTTTAAATAAAATAAAAATAAA
Found at i:1324527 original size:25 final size:24
Alignment explanation
Indices: 1324445--1324531 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 24
1324435 ACAAATAAAA
*
1324445 ATAAAATATTTTAAAATTAAGTTAAT
1 ATAAAATATTTT-TAATTAA-TTAAT
* *
1324471 AATAAAATATATTTAATAAATTAAT
1 -ATAAAATATTTTTAATTAATTAAT
1324496 ATAAAAATATTTTTAAGTTAA-TATAT
1 AT-AAAATATTTTTAA-TTAATTA-AT
1324522 ATAAAATATT
1 ATAAAATATT
1324532 ATGAATTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.04
25 27 0.52
26 12 0.23
27 11 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAAAATATTTTTAATTAATTAAT
Found at i:1324541 original size:25 final size:26
Alignment explanation
Indices: 1324494--1324550 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
1324484 TAATAAATTA
* *
1324494 ATATA-AAAATATTTTTAAGTTAA-T
1 ATATATAAAATATTATGAAGTTAAGT
*
1324518 ATATATAAAATATTATGAATTTAAGT
1 ATATATAAAATATTATGAAGTTAAGT
*
1324544 ATTTATA
1 ATATATA
1324551 CACTAAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.19
25 15 0.56
26 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (26 bp):
ATATATAAAATATTATGAAGTTAAGT
Found at i:1327534 original size:20 final size:20
Alignment explanation
Indices: 1327506--1327549 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1327496 TCTAGTTTCT
* * *
1327506 TATTTTACTAGATCAACTTA
1 TATTCTACTAAATCAACTAA
1327526 TATTCTACTAAATCAACTAA
1 TATTCTACTAAATCAACTAA
1327546 TATT
1 TATT
1327550 AATCAACTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTCTACTAAATCAACTAA
Found at i:1340020 original size:23 final size:23
Alignment explanation
Indices: 1339980--1340079 Score: 130
Period size: 23 Copynumber: 4.3 Consensus size: 23
1339970 CACTGAAGTG
* *
1339980 CCACATAGAATTTTTCCTG-AAGAA
1 CCACATAG-ATTTGTCCCGAAAG-A
* *
1340004 CCACATAGATTTATCCTGAAAGA
1 CCACATAGATTTGTCCCGAAAGA
1340027 CCACATAGATTTGTCCCGAAAGA
1 CCACATAGATTTGTCCCGAAAGA
*
1340050 CCACATAGATTTGTCCCGAATGA
1 CCACATAGATTTGTCCCGAAAGA
1340073 CCACATA
1 CCACATA
1340080 AAACCCTTGA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 60 0.85
24 11 0.15
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (23 bp):
CCACATAGATTTGTCCCGAAAGA
Found at i:1355574 original size:208 final size:208
Alignment explanation
Indices: 1355163--1355582 Score: 817
Period size: 207 Copynumber: 2.0 Consensus size: 208
1355153 GGAAATTAAT
1355163 TCAAATAATTCTATTATGAATTAATTACATTGTTTTCACATGAATAAAATTAATGCTGAAAATAT
1 TCAAATAATTCTATTATGAATTAATTACATTGTTTTCACATGAATAAAATTAATGCTGAAAATAT
1355228 ATTCCCCTAGGGATACCTCTTCTGCAAGGACATATGTGTATGAAATAATGAACGACTTTCTTTCA
66 ATTCCCCTAGGGATACCTCTTCTGCAAGGACATATGTGTATGAAATAATGAACGACTTTCTTTCA
1355293 TTATCCCTTCACAAAAGGAGAAATATATATCCTTTGTGTCCCATTTTAGCCTAAATTATATTTTC
131 TTATCCCTTCACAAAAGGAGAAATATATATCCTTTGTGTCCCATTTTAGCCTAAATTATATTTTC
1355358 TTCTGATTCAACC
196 TTCTGATTCAACC
1355371 TCAAAT-ATTCTATTATGAATTAATTACATTGTTTTCACATGAATAAAATTAATGCTGAAAATAT
1 TCAAATAATTCTATTATGAATTAATTACATTGTTTTCACATGAATAAAATTAATGCTGAAAATAT
1355435 ATTCCCCTAGGGATACCTCTTCTGCAAGGACATATGTGTATGAAATAATGAACGACTTTCTTTCA
66 ATTCCCCTAGGGATACCTCTTCTGCAAGGACATATGTGTATGAAATAATGAACGACTTTCTTTCA
1355500 TTATCCCTTCACAAAAGGAGAAAATATATATCCTTTGTGTCCCATTTTAGCCTAAATTATATTTT
131 TTATCCCTTCACAAAAGGAG-AAATATATATCCTTTGTGTCCCATTTTAGCCTAAATTATATTTT
1355565 CTTCTGATTCAACC
195 CTTCTGATTCAACC
1355579 -CAAA
1 TCAAA
1355583 CCAAGGATCA
Statistics
Matches: 211, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
207 147 0.70
208 64 0.30
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (208 bp):
TCAAATAATTCTATTATGAATTAATTACATTGTTTTCACATGAATAAAATTAATGCTGAAAATAT
ATTCCCCTAGGGATACCTCTTCTGCAAGGACATATGTGTATGAAATAATGAACGACTTTCTTTCA
TTATCCCTTCACAAAAGGAGAAATATATATCCTTTGTGTCCCATTTTAGCCTAAATTATATTTTC
TTCTGATTCAACC
Found at i:1356059 original size:19 final size:18
Alignment explanation
Indices: 1356035--1356070 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1356025 GAATGCAAAG
1356035 AGGGTACCGATACCCCCTA
1 AGGGTACC-ATACCCCCTA
*
1356054 AGGGTACCATATCCCCT
1 AGGGTACCATACCCCCT
1356071 GGAAGGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (18 bp):
AGGGTACCATACCCCCTA
Found at i:1356202 original size:21 final size:21
Alignment explanation
Indices: 1356164--1356204 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1356154 TTTGAATTTA
**
1356164 ATGAAGGAGTACTGATACCCT
1 ATGAAGGAGTACCAATACCCT
*
1356185 ATGAAGGGGTACCAATACCC
1 ATGAAGGAGTACCAATACCC
1356205 CCTGTATGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
ATGAAGGAGTACCAATACCCT
Found at i:1357432 original size:19 final size:20
Alignment explanation
Indices: 1357410--1357457 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1357400 AAAAATTTTC
*
1357410 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1357429 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1357449 TTTTGAAAA
1 TTTTGAAAA
1357458 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1358752 original size:62 final size:63
Alignment explanation
Indices: 1358648--1358767 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 63
1358638 ATCGGATTTG
*
1358648 AGGCAAAAAATTCCAGAATGCAAGAGCGTACCGATACCCCCCAGGGCTACCATACCCCCTGGA
1 AGGCAAAAAATTCCAGAATGCAAGAGCGTACCGATACCCCCCAGCGCTACCATACCCCCTGGA
* * * * *
1358711 AGGC-AAAAATTCTAGAATGCAAAGAGGGTACCGATA-TCCCCAGCGTTACTATACCCC
1 AGGCAAAAAATTCCAGAATGC-AAGAGCGTACCGATACCCCCCAGCGCTACCATACCCC
1358768 TGGCTACAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 32 0.64
63 18 0.36
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (63 bp):
AGGCAAAAAATTCCAGAATGCAAGAGCGTACCGATACCCCCCAGCGCTACCATACCCCCTGGA
Found at i:1358834 original size:21 final size:21
Alignment explanation
Indices: 1358808--1358848 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1358798 TTTGAATTTA
1358808 ATGAAGGAGTACCGATACCCT
1 ATGAAGGAGTACCGATACCCT
* *
1358829 ATGAAGGGGTACTGATACCC
1 ATGAAGGAGTACCGATACCC
1358849 CTGTACGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
ATGAAGGAGTACCGATACCCT
Found at i:1360533 original size:37 final size:36
Alignment explanation
Indices: 1360480--1360559 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
1360470 CTTACTAGAT
*
1360480 ACAATTTTCTTAAAAACAAA-ATTATCTCGCTTGAG
1 ACAATTTTATTAAAAACAAATATTATCTCGCTTGAG
* *
1360515 ACAATTTTATCTAGAAAACAAATTTTGTCTCGCTTGAG
1 ACAATTTTAT-TA-AAAACAAATATTATCTCGCTTGAG
1360553 ACAATTT
1 ACAATTT
1360560 CTCTCAAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 9 0.23
36 2 0.05
37 8 0.21
38 20 0.51
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (36 bp):
ACAATTTTATTAAAAACAAATATTATCTCGCTTGAG
Found at i:1360569 original size:36 final size:37
Alignment explanation
Indices: 1360480--1360595 Score: 123
Period size: 35 Copynumber: 3.2 Consensus size: 37
1360470 CTTACTAGAT
* * *
1360480 ACAATTTTCT-TA-AAAACAAAATTATCTCGCTTGAG
1 ACAATTTTATCTACAAAACAAATTTGTCTCGCTTGAG
*
1360515 ACAATTTTATCTAGAAAACAAATTTTGTCTCGCTTGAG
1 ACAATTTTATCTACAAAACAAA-TTTGTCTCGCTTGAG
* * *
1360553 ACAA-TTTCTCT-CAAAACAAATTTGTATCTCTTGAG
1 ACAATTTTATCTACAAAACAAATTTGTCTCGCTTGAG
*
1360588 ACATTTTT
1 ACAATTTT
1360596 CCTTTGAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
35 25 0.36
36 13 0.19
37 14 0.20
38 17 0.25
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (37 bp):
ACAATTTTATCTACAAAACAAATTTGTCTCGCTTGAG
Found at i:1361071 original size:130 final size:130
Alignment explanation
Indices: 1360853--1361185 Score: 375
Period size: 130 Copynumber: 2.6 Consensus size: 130
1360843 ATGACCAATT
* * * * *
1360853 GTCCTCATCACATAGGAATCGTGTCATCCACCGAGCAGACCTCCTCATCAAGTAGGAGCCCTGTC
1 GTCCTCATCACGTAGGAA-CGTTTCATCCACCGACCAGATCTCCTCATCAAGTAGGAGCCATGTC
* * * * * *
1360918 ACCTTAGATAACAAGTCGTCCTCATCACACAGGAACCG-TATTATCATCCCTAAAGATGGCTTA-
65 ACCCTAGATAACAAGCCATCCTCATCACACAGGAACCGTTATCACCATCCCTAAAGATGGC-CAG
1360981 CC
129 CC
* * *
1360983 GTCCTCATCACGGAGGAACCGTTTCATCCACCGACCAGATCTCCTCATCATGTACGAGCCATGTC
1 GTCCTCATCACGTAGGAA-CGTTTCATCCACCGACCAGATCTCCTCATCAAGTAGGAGCCATGTC
* * * ** * ** *
1361048 ACCCTATATAACCAGCCATCCTCATCGCGTAGGAATCGTTATCACCATTTCTAAAGATGGCCAGT
65 ACCCTAGATAACAAGCCATCCTCATCACACAGGAACCGTTATCACCATCCCTAAAGATGGCCAGC
1361113 C
130 C
* *
1361114 GTCCTCATCATGTAGGAACGTTTCATCCACCAACCAGATCTCCTCATCACA-TAGGAGCCATGTC
1 GTCCTCATCACGTAGGAACGTTTCATCCACCGACCAGATCTCCTCATCA-AGTAGGAGCCATGTC
*
1361178 ACCTTAGA
65 ACCCTAGA
1361186 CGACCAAAAC
Statistics
Matches: 169, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
130 134 0.79
131 35 0.21
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (130 bp):
GTCCTCATCACGTAGGAACGTTTCATCCACCGACCAGATCTCCTCATCAAGTAGGAGCCATGTCA
CCCTAGATAACAAGCCATCCTCATCACACAGGAACCGTTATCACCATCCCTAAAGATGGCCAGCC
Found at i:1361411 original size:13 final size:13
Alignment explanation
Indices: 1361372--1361403 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
1361362 TTAAAAAATA
1361372 TATTATTAAT-AT
1 TATTATTAATAAT
1361384 TATTATTAATAAT
1 TATTATTAATAAT
1361397 TATTATT
1 TATTATT
1361404 TCTAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTAATAAT
Found at i:1382092 original size:15 final size:15
Alignment explanation
Indices: 1382072--1382101 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1382062 GTGAATGATA
1382072 TGATAAGAAGCTATG
1 TGATAAGAAGCTATG
1382087 TGATAAGAAGCTATG
1 TGATAAGAAGCTATG
1382102 AGCCTATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGCTATG
Found at i:1382364 original size:21 final size:21
Alignment explanation
Indices: 1382338--1382377 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1382328 ATATGTGTTA
*
1382338 TATGTGGTCCTTCGGGACATC
1 TATGTGGTCCTTCGAGACATC
1382359 TATGTGGTCCTTCGAGACA
1 TATGTGGTCCTTCGAGACA
1382378 AATCCTATGT
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:0.17, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TATGTGGTCCTTCGAGACATC
Found at i:1383061 original size:2 final size:2
Alignment explanation
Indices: 1383054--1383106 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1383044 TATGGCATCA
1383054 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
1383096 AT AT AT AT AT A
1 AT AT AT AT AT A
1383107 ATGGTGATAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1384734 original size:16 final size:17
Alignment explanation
Indices: 1384707--1384740 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1384697 TTCTTCATTC
1384707 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
1384724 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
1384740 T
1 T
1384741 GATACCTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:1388948 original size:32 final size:33
Alignment explanation
Indices: 1388907--1388994 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 33
1388897 CCATGCACGT
1388907 CCCCAACACAGGTCGCCATGCACTCCCCAAC-A
1 CCCCAACACAGGTCGCCATGCACTCCCCAACGA
*
1388939 CCCCAACACAGGTCGCCATGCACT-CCCAGCGA
1 CCCCAACACAGGTCGCCATGCACTCCCCAACGA
*
1388971 --CCTACA-AGGTCGCCATGCACTCCC
1 CCCCAACACAGGTCGCCATGCACTCCC
1388995 AGCGACCTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
29 15 0.29
30 7 0.13
31 5 0.10
32 25 0.48
ACGTcount: A:0.25, C:0.48, G:0.16, T:0.11
Consensus pattern (33 bp):
CCCCAACACAGGTCGCCATGCACTCCCCAACGA
Found at i:1388990 original size:29 final size:30
Alignment explanation
Indices: 1388912--1389002 Score: 123
Period size: 29 Copynumber: 3.0 Consensus size: 30
1388902 CACGTCCCCA
* *
1388912 ACACAGGTCGCCATGCACTCCCCAAC-ACCCCA
1 ACACAGGTCGCCATGCACT-CCCAGCGA--CCT
1388944 ACACAGGTCGCCATGCACTCCCAGCGACCT
1 ACACAGGTCGCCATGCACTCCCAGCGACCT
1388974 ACA-AGGTCGCCATGCACTCCCAGCGACCT
1 ACACAGGTCGCCATGCACTCCCAGCGACCT
1389003 TGTAGGTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
29 26 0.46
30 5 0.09
31 5 0.09
32 20 0.36
ACGTcount: A:0.25, C:0.45, G:0.18, T:0.12
Consensus pattern (30 bp):
ACACAGGTCGCCATGCACTCCCAGCGACCT
Found at i:1389542 original size:2 final size:2
Alignment explanation
Indices: 1389535--1389560 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1389525 GTGTTCATTA
1389535 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
1389561 TTAAGTCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1389680 original size:21 final size:23
Alignment explanation
Indices: 1389656--1389704 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1389646 TCTCTTAAAA
1389656 TTATCATT-T-TAATAAGATTAT
1 TTATCATTATATAATAAGATTAT
* *
1389677 TTATGATTGATATAATAAGGTTAT
1 TTATCATT-ATATAATAAGATTAT
1389701 TTAT
1 TTAT
1389705 TGTTGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
23 1 0.04
24 15 0.65
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (23 bp):
TTATCATTATATAATAAGATTAT
Found at i:1389700 original size:24 final size:24
Alignment explanation
Indices: 1389665--1389718 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1389655 ATTATCATTT
1389665 TAATAAGATTATTTA-TGATTGATA
1 TAATAAGATTATTTATTG-TTGATA
*
1389689 TAATAAGGTTATTTATTGTTGATA
1 TAATAAGATTATTTATTGTTGATA
*
1389713 AAATAA
1 TAATAA
1389719 AGTGACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (24 bp):
TAATAAGATTATTTATTGTTGATA
Found at i:1390966 original size:20 final size:20
Alignment explanation
Indices: 1390930--1390967 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1390920 ACAATTTCCA
*
1390930 AATTCGCAACTCAAATTTGG
1 AATTCGCAACACAAATTTGG
*
1390950 AATTCGCAACACGAATTT
1 AATTCGCAACACAAATTT
1390968 CTTTTTCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (20 bp):
AATTCGCAACACAAATTTGG
Found at i:1391708 original size:20 final size:20
Alignment explanation
Indices: 1391685--1391763 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
1391675 CGAAAATCGT
1391685 AACTCGAAAATGAAATTCGC
1 AACTCGAAAATGAAATTCGC
1391705 AACTCGAAAATGAAATTCGC
1 AACTCGAAAATGAAATTCGC
** *
1391725 AACTCGAAAACAAAAATCGC
1 AACTCGAAAATGAAATTCGC
1391745 AACTCGAAAATGAAATTCG
1 AACTCGAAAATGAAATTCG
1391764 AGTTGCGAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (20 bp):
AACTCGAAAATGAAATTCGC
Found at i:1391772 original size:20 final size:21
Alignment explanation
Indices: 1391749--1391792 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
1391739 AATCGCAACT
*
1391749 CGAAAAT-GAAATTCGAGTTG
1 CGAAAATCAAAATTCGAGTTG
*
1391769 CG-AATTCAAAATTCGAGTTG
1 CGAAAATCAAAATTCGAGTTG
1391789 CGAA
1 CGAA
1391793 TTTCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 3 0.15
20 16 0.80
21 1 0.05
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (21 bp):
CGAAAATCAAAATTCGAGTTG
Found at i:1391779 original size:40 final size:40
Alignment explanation
Indices: 1391676--1391763 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
1391666 TTCGCAACAC
* * ** *
1391676 GAAAATCGTAACTCGAAAATGAAATTCGCAACTCGAAAAT
1 GAAATTCGCAACTCGAAAACAAAAATCGCAACTCGAAAAT
1391716 GAAATTCGCAACTCGAAAACAAAAATCGCAACTCGAAAAT
1 GAAATTCGCAACTCGAAAACAAAAATCGCAACTCGAAAAT
1391756 GAAATTCG
1 GAAATTCG
1391764 AGTTGCGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (40 bp):
GAAATTCGCAACTCGAAAACAAAAATCGCAACTCGAAAAT
Found at i:1391803 original size:20 final size:20
Alignment explanation
Indices: 1391760--1391882 Score: 140
Period size: 20 Copynumber: 6.2 Consensus size: 20
1391750 GAAAATGAAA
**
1391760 TTCGAGTTGCGAA-TTCAAAA
1 TTCGAGTTGCGAATTTC-ATT
1391780 TTCGAGTTGCGAATTTCATT
1 TTCGAGTTGCGAATTTCATT
* **
1391800 TTCGAGTTGCGATTTTTGTT
1 TTCGAGTTGCGAATTTCATT
*
1391820 TTCAAGTTGCGAATTTCATT
1 TTCGAGTTGCGAATTTCATT
* *
1391840 TTCGAATTGCGAATTTGATT
1 TTCGAGTTGCGAATTTCATT
* *
1391860 TTCGTGTTGCGAATTTGATT
1 TTCGAGTTGCGAATTTCATT
1391880 TTC
1 TTC
1391883 TTGAAATAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
20 85 0.97
21 3 0.03
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (20 bp):
TTCGAGTTGCGAATTTCATT
Found at i:1392439 original size:3 final size:3
Alignment explanation
Indices: 1392431--1392486 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
1392421 TCGTGGCTCT
*** ** *
1392431 TTC TTC TTC TTC TTC TT- TTC TTC GGG GAC TTC TTC TTC TTC TTC TTT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1392478 TTC TTC TTC
1 TTC TTC TTC
1392487 AGGGTTATAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.02, C:0.29, G:0.07, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:1392719 original size:24 final size:24
Alignment explanation
Indices: 1392691--1392768 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
1392681 CTGAAACATC
* *
1392691 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
1392715 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
*
1392739 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
1392763 ATCAAA
1 ATCAAA
1392769 TTTCGAATAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (24 bp):
ATCAAAGTCCGGGTATTGACCAAG
Found at i:1392915 original size:12 final size:12
Alignment explanation
Indices: 1392894--1392927 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1392884 AGTTATGGAT
*
1392894 TTTGAGATTGTG
1 TTTGATATTGTG
1392906 TTTGATATTGTG
1 TTTGATATTGTG
*
1392918 TTTGGTATTG
1 TTTGATATTG
1392928 GAAATTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1393904 original size:21 final size:20
Alignment explanation
Indices: 1393854--1393933 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
1393844 GCGAAATTGT
*
1393854 CAAATTCGAGTTGTGAATTC
1 CAAATTCGAGTTGCGAATTC
* * * *
1393874 GAATTTTGTGTTGCGAATTC
1 CAAATTCGAGTTGCGAATTC
*
1393894 CAAATTCTGTGTTGCGAATTC
1 CAAATTC-GAGTTGCGAATTC
*
1393915 GAAA-TCGAGTTGCGAATTC
1 CAAATTCGAGTTGCGAATTC
1393934 GATGGTTATT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 12 0.24
20 21 0.43
21 16 0.33
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
CAAATTCGAGTTGCGAATTC
Found at i:1394970 original size:18 final size:18
Alignment explanation
Indices: 1394947--1394981 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1394937 GAGGCTTGAA
*
1394947 AAGAAAAAAAAGAGGAAG
1 AAGAAAAAAAAAAGGAAG
1394965 AAGAAAAAAAAAAGGAA
1 AAGAAAAAAAAAAGGAA
1394982 AACCACGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAAAAGGAAG
Found at i:1395049 original size:2 final size:2
Alignment explanation
Indices: 1395042--1395069 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1395032 CATCGAAAGA
1395042 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1395070 GAACCTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1395392 original size:2 final size:2
Alignment explanation
Indices: 1395385--1395413 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1395375 TATGTTTTTC
1395385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1395414 ATAAACAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1400221 original size:21 final size:21
Alignment explanation
Indices: 1400179--1400221 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1400169 TTTTTAGGCT
* * *
1400179 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1400200 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1400221 A
1 A
1400222 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1400273 original size:20 final size:20
Alignment explanation
Indices: 1400248--1400285 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1400238 GAACGCTAGA
*
1400248 GGGGAATCGATACCCCCAAG
1 GGGGAACCGATACCCCCAAG
*
1400268 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
1400286 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.29, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAAG
Found at i:1400989 original size:103 final size:103
Alignment explanation
Indices: 1400764--1400981 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
1400754 GTAGAGGGTC
*
1400764 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1400829 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * *
1400867 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTTTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1400932 TTGATCCTTGGCATTTGTATATGGTTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1400970 TATGTGGTCCTT
1 TATGTGGTCCTT
1400982 ATGGACATTT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.39
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1401031 original size:23 final size:23
Alignment explanation
Indices: 1400998--1401060 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
1400988 ATTTTTATAT
1400998 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1401021 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
1401044 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
1401061 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1404222 original size:66 final size:66
Alignment explanation
Indices: 1404088--1404258 Score: 204
Period size: 66 Copynumber: 2.6 Consensus size: 66
1404078 TTGAGATATA
* * * **
1404088 TTGAAACATCATCTTTGAGAACAGTTCCCTTGAAACAAAGTTTTATCTCTCTTGAGACTGTTTCT
1 TTGAAACATCATCTTTGAGATCATTTCCCTTGAAACAAAGTTTTATCTCTCTTAAGACACTTTCT
1404153 C
66 C
* *
1404154 TTGAAACACCCATCTTTGAGATCATTTCCCTTGAAACGAA-TTTTATCTCTCTTAAGACAACTTT
1 TTGAAACA-TCATCTTTGAGATCATTTCCCTTGAAACAAAGTTTTATCTCTCTTAAGAC-ACTTT
1404218 -TC
64 CTC
* * *
1404220 TTGAAGCATCATCTTTGAG-TCTGTTTCTCTTGAAACAAA
1 TTGAAACATCATCTTTGAGATC-ATTTCCCTTGAAACAAA
1404259 TCCCTAAAGA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.02
65 24 0.27
66 34 0.38
67 30 0.33
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (66 bp):
TTGAAACATCATCTTTGAGATCATTTCCCTTGAAACAAAGTTTTATCTCTCTTAAGACACTTTCT
C
Found at i:1404366 original size:43 final size:43
Alignment explanation
Indices: 1404311--1404422 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
1404301 TCATCCCCCG
* * *
1404311 ACCAGACC-TCCTCATCATGTAGGAGCTATGTCACCCCTATATA
1 ACCAG-CCGTCCTCATCACGTAGGAACCATGTCACCCCTATATA
* *
1404354 ACCAGCTGTCCTCATCACGTAGGAACCGTGTCACCCCTATATA
1 ACCAGCCGTCCTCATCACGTAGGAACCATGTCACCCCTATATA
1404397 ACCAGCCGTCCTCATCACGTAGGAAC
1 ACCAGCCGTCCTCATCACGTAGGAAC
1404423 TGTGTTATCA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (43 bp):
ACCAGCCGTCCTCATCACGTAGGAACCATGTCACCCCTATATA
Found at i:1404639 original size:134 final size:131
Alignment explanation
Indices: 1404354--1404659 Score: 386
Period size: 134 Copynumber: 2.3 Consensus size: 131
1404344 CCCCTATATA
* * * *
1404354 ACCAG-CTGTCCTCATCACGTAGGAACCGTGTCACCCCTATATAACCAGCCGTCCTCATCACGTA
1 ACCAGACT-TCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTACTCATCACGTA
* * * * *
1404418 GGAACTGTGTTATCATCTCTAAAGATGATCTACAGTCCTCATCACGTAGGAGCCATGTCATCCAG
65 GGAACCGTGTTATCATCCCTAAAGATGATATACAGTCCTCATCACGTAGGAACCATGTCATCCAC
1404483 CG
130 CG
* * *
1404485 ACCAGACTTCCTCATCACGTAGGAGCAGTGTCACCCTTAGATAACTAGCCGTACTCATCGCGTAG
1 ACCAGACTTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTACTCATCACGTAG
* **
1404550 GAACCGTGTTATCACCCTCCCTAAAGATGGCATAT-C-GTCCTCATCGCGTAGGAACTGTGTCAT
66 GAACCGTGTTATCA---TCCCTAAAGAT-G-ATATACAGTCCTCATCACGTAGGAACCATGTCAT
1404613 CCACCG
126 CCACCG
1404619 ACCAGA-TCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
1 ACCAGACT-TCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
1404660 AGACCAACAC
Statistics
Matches: 152, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
131 68 0.45
132 2 0.01
133 1 0.01
134 76 0.50
135 2 0.01
136 3 0.02
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (131 bp):
ACCAGACTTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTACTCATCACGTAG
GAACCGTGTTATCATCCCTAAAGATGATATACAGTCCTCATCACGTAGGAACCATGTCATCCACC
G
Found at i:1404844 original size:3 final size:3
Alignment explanation
Indices: 1404838--1404883 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
1404828 GTCAAAAAAA
1404838 TAT TAT TAT T-T TAAT TAT TAT TAT TAT TAT TAT T-T TAT TAAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
1404883 T
1 T
1404884 TTGTTTACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1404856 original size:12 final size:11
Alignment explanation
Indices: 1404838--1404885 Score: 69
Period size: 12 Copynumber: 4.1 Consensus size: 11
1404828 GTCAAAAAAA
1404838 TATTATTATTT
1 TATTATTATTT
1404849 TAATTATTATTAT
1 T-ATTATTATT-T
1404862 TATTATTATTT
1 TATTATTATTT
1404873 TATTAATTATTT
1 TATT-ATTATTT
1404885 T
1 T
1404886 GTTTACAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.18
12 26 0.76
13 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTATTATTT
Found at i:1404870 original size:24 final size:24
Alignment explanation
Indices: 1404838--1404883 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
1404828 GTCAAAAAAA
1404838 TATTATTATTTTAATT-ATTATTAT
1 TATTATTATTTT-ATTAATTATTAT
1404862 TATTATTATTTTATTAATTATT
1 TATTATTATTTTATTAATTATT
1404884 TTGTTTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTATTTTATTAATTATTAT
Found at i:1405363 original size:19 final size:20
Alignment explanation
Indices: 1405333--1405371 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1405323 TTCGGGTTTT
*
1405333 GAAAAGAAAAAAGAGAGGAA
1 GAAAAGAAAAAACAGAGGAA
1405353 GAAAA-AAAAAACAGAGGAA
1 GAAAAGAAAAAACAGAGGAA
1405372 AACCATGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAACAGAGGAA
Found at i:1412384 original size:11 final size:11
Alignment explanation
Indices: 1412363--1412411 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
1412353 TAGAAGCTAG
*
1412363 CTCTTCATCTT
1 CTCTTCTTCTT
*
1412374 CTCTTTTTCTT
1 CTCTTCTTCTT
*
1412385 CTCTTCATCTT
1 CTCTTCTTCTT
1412396 CTCTTCTTCTT
1 CTCTTCTTCTT
1412407 CTCTT
1 CTCTT
1412412 TACCGTGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.61
Consensus pattern (11 bp):
CTCTTCTTCTT
Found at i:1412391 original size:22 final size:22
Alignment explanation
Indices: 1412363--1412411 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
1412353 TAGAAGCTAG
*
1412363 CTCTTCATCTTCTCTTTTTCTT
1 CTCTTCATCTTCTCTTCTTCTT
1412385 CTCTTCATCTTCTCTTCTTCTT
1 CTCTTCATCTTCTCTTCTTCTT
1412407 CTCTT
1 CTCTT
1412412 TACCGTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.61
Consensus pattern (22 bp):
CTCTTCATCTTCTCTTCTTCTT
Found at i:1412610 original size:3 final size:3
Alignment explanation
Indices: 1412602--1412728 Score: 193
Period size: 3 Copynumber: 42.0 Consensus size: 3
1412592 AATTTTAATC
1412602 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
1412648 TTA TTA TTA ATG TTA TTA TTA TTA TTA TT- TTGT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
1412693 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1412729 CACTACATAT
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
2 2 0.02
3 107 0.94
4 5 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1417852 original size:23 final size:23
Alignment explanation
Indices: 1417826--1417890 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
1417816 ACAAGAATTC
1417826 ACAATATGGGGCATCTCGAGAAG
1 ACAATATGGGGCATCTCGAGAAG
*
1417849 ACAACATGGGGCATCTCGAGAAG
1 ACAATATGGGGCATCTCGAGAAG
*
1417872 ACAATGTGGGGCATCTCGA
1 ACAATATGGGGCATCTCGA
1417891 ATCAATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.31, T:0.17
Consensus pattern (23 bp):
ACAATATGGGGCATCTCGAGAAG
Found at i:1418327 original size:50 final size:49
Alignment explanation
Indices: 1418264--1418379 Score: 110
Period size: 51 Copynumber: 2.3 Consensus size: 49
1418254 GTGAACGAAT
** * *
1418264 ACAAAGTGCAAAGATCAAAT-CA-AAACAAAGAGAAAATAAGCAAAGAAGAA
1 ACAAAGTAAAAAGATCAAATAAAGAAACAAAGAGAAAA-AAACAAA-AA-AA
*
1418314 ACAAAGTAAAAAGAATTAAATGAAAGAAACAAAGAGAAAAAAACAAAAAAA
1 ACAAAGTAAAAAG-ATCAAAT-AAAGAAACAAAGAGAAAAAAACAAAAAAA
**
1418365 ACAAAAAAAAAAGAT
1 ACAAAGTAAAAAGAT
1418380 GACAAGAAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
50 13 0.24
51 19 0.35
52 2 0.04
53 7 0.13
54 14 0.25
ACGTcount: A:0.71, C:0.09, G:0.13, T:0.08
Consensus pattern (49 bp):
ACAAAGTAAAAAGATCAAATAAAGAAACAAAGAGAAAAAAACAAAAAAA
Found at i:1418375 original size:10 final size:9
Alignment explanation
Indices: 1418350--1418374 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1418340 AAACAAAGAG
1418350 AAAAAAACA
1 AAAAAAACA
1418359 AAAAAAACA
1 AAAAAAACA
1418368 AAAAAAA
1 AAAAAAA
1418375 AAGATGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:1419676 original size:16 final size:16
Alignment explanation
Indices: 1419655--1419694 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1419645 GATCGAGAAA
**
1419655 ACATACATCAATGCAT
1 ACATACATCAACACAT
*
1419671 ACATACATTAACACAT
1 ACATACATCAACACAT
1419687 ACATACAT
1 ACATACAT
1419695 ATTACATGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:1420331 original size:35 final size:36
Alignment explanation
Indices: 1420278--1420401 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
1420268 CAAAGTTGAT
** *
1420278 TCACTTGAGATCGTTTTCTC-AAAAACAAACTTTGTC
1 TCACTTGAGA-CAATTTCTCTAAAAACAAATTTTGTC
* * *
1420314 TCGCTTGAGAGAATTTCTCTAAAAACAATTTTTGTC
1 TCACTTGAGACAATTTCTCTAAAAACAAATTTTGTC
*
1420350 TCATTTGAGACAATTTCTCTAAAAACAAATTTTGTC
1 TCACTTGAGACAATTTCTCTAAAAACAAATTTTGTC
* *
1420386 TTAGTTGAGACAATTT
1 TCACTTGAGACAATTT
1420402 TCCAAATTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
35 6 0.08
36 69 0.92
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (36 bp):
TCACTTGAGACAATTTCTCTAAAAACAAATTTTGTC
Found at i:1420475 original size:30 final size:31
Alignment explanation
Indices: 1420439--1420497 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1420429 AACAAACATC
**
1420439 ATCTTTGAG-TCGTTTCTTTTGAAACAAAGG
1 ATCTTTGAGTTCGTTTCACTTGAAACAAAGG
*
1420469 ATCTTTGAGTTTGTTTCACTTGAAACAAA
1 ATCTTTGAGTTCGTTTCACTTGAAACAAA
1420498 ATAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (31 bp):
ATCTTTGAGTTCGTTTCACTTGAAACAAAGG
Found at i:1420665 original size:33 final size:33
Alignment explanation
Indices: 1420605--1420668 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1420595 CAACATTTAC
*
1420605 CATCTGTGAGTATGTTTCCCTTGAAACAAAACT
1 CATCTGTGAGTATGTTTCCCTTAAAACAAAACT
* * **
1420638 CATCTTTGAGTATTTTTCTTTTAAAACAAAA
1 CATCTGTGAGTATGTTTCCCTTAAAACAAAA
1420669 TTTTGTCTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (33 bp):
CATCTGTGAGTATGTTTCCCTTAAAACAAAACT
Found at i:1420734 original size:29 final size:30
Alignment explanation
Indices: 1420702--1420758 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1420692 TTTATGAAAA
* *
1420702 ATCTTTGAG-TCCTTTCTTTTGAAACACCT
1 ATCTTTGAGTTACTTTCTCTTGAAACACCT
*
1420731 ATCTTTGAGTTAGTTTCTCTTGAAACAC
1 ATCTTTGAGTTACTTTCTCTTGAAACAC
1420759 ACACCTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (30 bp):
ATCTTTGAGTTACTTTCTCTTGAAACACCT
Found at i:1420767 original size:30 final size:30
Alignment explanation
Indices: 1420714--1420787 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
1420704 CTTTGAGTCC
* * *
1420714 TTTCTTTTGAAACACCTATCTTTGAGTTAG
1 TTTCTATTGAAACACCTACCTTTGAGATAG
* *
1420744 TTTCTCTTGAAACACAC-ACCTTTGAGATCG
1 TTTCTATTGAAACAC-CTACCTTTGAGATAG
*
1420774 TTTCTATTAAAACA
1 TTTCTATTGAAACA
1420788 AATTTTGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 36 0.97
31 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTCTATTGAAACACCTACCTTTGAGATAG
Found at i:1420868 original size:65 final size:66
Alignment explanation
Indices: 1420763--1420902 Score: 167
Period size: 65 Copynumber: 2.1 Consensus size: 66
1420753 AAACACACAC
** * * *
1420763 CTTTGAGATCGTTTCTATTAAAACAAATTTTGTTTCCTTGAGGCAGTTTCTCTTAAAATAAAACC
1 CTTTGAG-TCGTTTCTATTAAAACAAATTTTGACTCCTTGAGACAGTTTCTCGTAAAACAAAACC
1420828 AT
65 AT
* * * *
1420830 CTTTGAGTCGTTTCCT-TTGAAACAAATTTTGACT-CTTGAGACATTTTCTCGTAAAACAAGATC
1 CTTTGAGTCGTTT-CTATTAAAACAAATTTTGACTCCTTGAGACAGTTTCTCGTAAAACAAAACC
1420893 AT
65 AT
1420895 CTTTGAGT
1 CTTTGAGT
1420903 TTGTTTCTCT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 33 0.52
66 21 0.33
67 9 0.14
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (66 bp):
CTTTGAGTCGTTTCTATTAAAACAAATTTTGACTCCTTGAGACAGTTTCTCGTAAAACAAAACCA
T
Found at i:1420918 original size:66 final size:66
Alignment explanation
Indices: 1420783--1420942 Score: 157
Period size: 65 Copynumber: 2.4 Consensus size: 66
1420773 GTTTCTATTA
** * * * *
1420783 AAACAAATTTTGTTTCCTTGAGGCAGTTTCTCTTAAAATAAAACCATCTTTGAGTCGTTTCCTTT
1 AAACAAATTTTGACTCCTTGAGACAGTTTCTCGTAAAACAAAACCATCTTTGAGTCGTTTCCTTG
1420848 G
66 G
* * * *
1420849 AAACAAATTTTGACT-CTTGAGACATTTTCTCGTAAAACAAGATCATCTTTGAGTTTGTTT-CTC
1 AAACAAATTTTGACTCCTTGAGACAGTTTCTCGTAAAACAAAACCATCTTTGAG-TCGTTTCCT-
1420912 TGG
64 TGG
*
1420915 AAACAAGGTTTT-A-TCCTTTGAGACAGTT
1 AAACAA-ATTTTGACTCC-TTGAGACAGTT
1420943 CCTTTTGAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
65 35 0.45
66 28 0.36
67 14 0.18
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (66 bp):
AAACAAATTTTGACTCCTTGAGACAGTTTCTCGTAAAACAAAACCATCTTTGAGTCGTTTCCTTG
G
Found at i:1421102 original size:29 final size:29
Alignment explanation
Indices: 1421058--1421195 Score: 165
Period size: 29 Copynumber: 4.8 Consensus size: 29
1421048 AACGAAACCT
* * *
1421058 ATCTTTGAGTTTGTTTCTCTTGAAACAAAA
1 ATCTGTGAG-TTGTTTCTTTTGAAATAAAA
*
1421088 GTCTGTGAGTTGTTTCTTTTGAAATAAAA
1 ATCTGTGAGTTGTTTCTTTTGAAATAAAA
*
1421117 ATTTGTGAGTTGTTTCTTTTGAAATAAAA
1 ATCTGTGAGTTGTTTCTTTTGAAATAAAA
*
1421146 ATCTTTGAGTTGTTTCTTTTG--A-AAAA
1 ATCTGTGAGTTGTTTCTTTTGAAATAAAA
* *
1421172 TTCTTTGAGTCTGTTTCTTTTGAA
1 ATCTGTGAGT-TGTTTCTTTTGAA
1421196 CCAAAGTTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.14
27 12 0.12
29 64 0.67
30 7 0.07
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.49
Consensus pattern (29 bp):
ATCTGTGAGTTGTTTCTTTTGAAATAAAA
Found at i:1421251 original size:89 final size:91
Alignment explanation
Indices: 1421142--1421312 Score: 247
Period size: 92 Copynumber: 1.9 Consensus size: 91
1421132 CTTTTGAAAT
** * * *
1421142 AAAAATCTTTGAGTTGTTTCTTTTG-AA-AAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTT
1 AAAAATCTTTGAGTCATTTCTTTTGAAACAAAATATTTGAGTCTGTTTCTTTTGAAACAAAGTTT
*
1421205 TGTTTCTCTTAAGATAATTTCGTGGA
66 TGTCTCTCTTAAGATAATTTCGTGGA
*
1421231 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATATTTGAGTTTGTTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTCATTTCTTTTGAAA-CAAAATATTTGAGTCTGTTTCTTTTGAAACAAAGTT
*
1421296 TTGTCTCTCTTGAGATA
65 TTGTCTCTCTTAAGATA
1421313 GTTTTTCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 23 0.32
90 2 0.03
92 46 0.65
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (91 bp):
AAAAATCTTTGAGTCATTTCTTTTGAAACAAAATATTTGAGTCTGTTTCTTTTGAAACAAAGTTT
TGTCTCTCTTAAGATAATTTCGTGGA
Found at i:1421270 original size:29 final size:30
Alignment explanation
Indices: 1421232--1421289 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1421222 TTTCGTGGAA
*
1421232 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATATTTGAGTTCATTTCTTTTGAAACC
**
1421261 AAAATATTTGAGTTTGTTTCTTTTGAAAC
1 AAAATATTTGAGTTCATTTCTTTTGAAAC
1421290 AAAGTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (30 bp):
AAAATATTTGAGTTCATTTCTTTTGAAACC
Found at i:1421292 original size:29 final size:28
Alignment explanation
Indices: 1421232--1421292 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
1421222 TTTCGTGGAA
**
1421232 AAAATCTTTGAGTCATTTCTTTTGAAACC
1 AAAATCTTTGAGTTGTTTCTTTTGAAA-C
*
1421261 AAAATATTTGAGTTTGTTTCTTTTGAAAC
1 AAAATCTTTGAG-TTGTTTCTTTTGAAAC
1421290 AAA
1 AAA
1421293 GTTTTGTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (28 bp):
AAAATCTTTGAGTTGTTTCTTTTGAAAC
Found at i:1421780 original size:40 final size:39
Alignment explanation
Indices: 1421720--1421795 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
1421710 CTAAAGATGG
1421720 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA-CCCCCGA
* *
1421760 CCAGATCTCTTCATCGCGTATGAGCCGTGTCACCCC
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCACCCC
1421796 TAGATAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.20, C:0.38, G:0.18, T:0.24
Consensus pattern (39 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCACCCCCGA
Found at i:1421815 original size:134 final size:133
Alignment explanation
Indices: 1421575--1421933 Score: 511
Period size: 134 Copynumber: 2.7 Consensus size: 133
1421565 AATCATTATC
* ** * *
1421575 CCTAAAGATGGCCAAAACTCTTCATCACGTATGATTCGTGTCATCTCCTGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCCTCAT
* * * *
1421640 CACGTAGAAGCCGTGTCAACCATAGATAACCAAACGTCCTCATCACGTAGGAACCGTGTTATCGC
66 CACGTAG-AGCCGTGTCACCCATAGATAACCAAACGTCCTCATCACATAGGAACCGAGTTATCAC
1421705 CCTT
130 CCTT
*
1421709 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCCTCAT
* * **
1421774 CGCGTATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACATAGGAACCGAGTTATCAC
66 CACGTA-GAGCCGTGTCACCCATAGATAACCAAACGTCCTCATCACATAGGAACCGAGTTATCAC
1421839 CCTT
130 CCTT
** * *
1421843 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAATGTCATCCCTCGACCAGATTTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCCTCAT
* *
1421908 CACGTAGGAACCGTGTCACCCTTAGA
66 CACGTA-GAGCCGTGTCACCCATAGA
1421934 CGACCCGAAC
Statistics
Matches: 201, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 200 1.00
135 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.24
Consensus pattern (133 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCCTCAT
CACGTAGAGCCGTGTCACCCATAGATAACCAAACGTCCTCATCACATAGGAACCGAGTTATCACC
CTT
Found at i:1421967 original size:43 final size:40
Alignment explanation
Indices: 1421854--1421972 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 40
1421844 CTAAAGATGG
*
1421854 CCAGAACTCTTCATCACGTATGAGCAATGTCATCCCTCGA
1 CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCGA
** * * * *
1421894 CCAGATTTCCTCATCACGTAGGAACCGTGTCA-CCCTTAGACGA
1 CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCC-T---CGA
* *
1421937 CCCGAACTCTTCATCACGTATGAGCAGTGTCGTCCC
1 CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCC
1421973 CAACAACACA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
39 3 0.05
40 26 0.44
43 27 0.46
44 3 0.05
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCGA
Found at i:1422140 original size:3 final size:3
Alignment explanation
Indices: 1422132--1422238 Score: 135
Period size: 3 Copynumber: 35.0 Consensus size: 3
1422122 AATTTTAATC
*
1422132 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
* *
1422178 TTA TTA TTA TTA TT- TTGT TTA TTAA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* *
1422224 TTT TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA
1422239 CACTACACAT
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
2 2 0.02
3 81 0.89
4 8 0.09
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1422178 original size:40 final size:40
Alignment explanation
Indices: 1422133--1422238 Score: 151
Period size: 40 Copynumber: 2.6 Consensus size: 40
1422123 ATTTTAATCT
1422133 TATTATTATTATTATTATTATTATTATTAATTATTATTAG
1 TATTATTATTATTATTATTATTATTATTAATTATTATTAG
* *
1422173 TATTATTATTATTATTATT-TTGTTTATTAATTATTATTAT
1 TATTATTATTATTATTATTATT-ATTATTAATTATTATTAG
* * *
1422213 TATTATTACTATTTTTATTAATATTA
1 TATTATTATTATTATTATTATTATTA
1422239 CACTACACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 55 0.95
41 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (40 bp):
TATTATTATTATTATTATTATTATTATTAATTATTATTAG
Done.