Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 8 of 17
Found at i:1088410 original size:10 final size:10
Alignment explanation
Indices: 1088397--1088430 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
1088387 TATATATATA
1088397 CACACACATG
1 CACACACATG
1088407 CACACACATG
1 CACACACATG
1088417 CACACACATG
1 CACACACATG
1088427 CACA
1 CACA
1088431 AATGTGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.09, T:0.09
Consensus pattern (10 bp):
CACACACATG
Found at i:1090360 original size:32 final size:34
Alignment explanation
Indices: 1090306--1090368 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
1090296 TCTTACAACC
*
1090306 CTATCTTTTCACAGGCTAAGATAGAACCTCTATA
1 CTATCTTTTCACAAGCTAAGATAGAACCTCTATA
1090340 CTATCTTTT-A-AAGCTAAGATAGAACCTCT
1 CTATCTTTTCACAAGCTAAGATAGAACCTCT
1090369 CAATCACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 18 0.64
33 1 0.04
34 9 0.32
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (34 bp):
CTATCTTTTCACAAGCTAAGATAGAACCTCTATA
Found at i:1093060 original size:20 final size:19
Alignment explanation
Indices: 1093033--1093082 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1093023 TATATTTGTC
1093033 TATAAATTTTAATACATAAAA
1 TATAAATTTTAA-ACA-AAAA
* *
1093054 T-TAAATTATAAATAAAAA
1 TATAAATTTTAAACAAAAA
1093072 TATAAATTTTA
1 TATAAATTTTA
1093083 TTTTGAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
20 9 0.36
21 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TATAAATTTTAAACAAAAA
Found at i:1101909 original size:26 final size:25
Alignment explanation
Indices: 1101879--1101935 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
1101869 ATAGGATTGA
1101879 TAAAGTTCAACTTTATCTAAGATTAC
1 TAAAGTTCAACTTTATCTAAGATT-C
* *
1101905 TAAAGTTGAACTTTATCTGAGATTC
1 TAAAGTTCAACTTTATCTAAGATTC
1101930 TAAAGT
1 TAAAGT
1101936 AATCTTAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
TAAAGTTCAACTTTATCTAAGATTC
Found at i:1108407 original size:26 final size:28
Alignment explanation
Indices: 1108378--1108430 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1108368 TTTTTTAATA
1108378 ATTAAATT-ATT-TTTTAAAAAAATTAT
1 ATTAAATTAATTATTTTAAAAAAATTAT
* *
1108404 ATTAAATTAATTATTTTTAAGAAATTA
1 ATTAAATTAATTATTTTAAAAAAATTA
1108431 AAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
28 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAAATTAATTATTTTAAAAAAATTAT
Found at i:1111248 original size:24 final size:24
Alignment explanation
Indices: 1111213--1111261 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1111203 AATAACATTC
1111213 TTTTAATCTTGAATTTAACAGCAT
1 TTTTAATCTTGAATTTAACAGCAT
* *
1111237 TTTTAATTTTGAATTTTACAGCAT
1 TTTTAATCTTGAATTTAACAGCAT
1111261 T
1 T
1111262 GAGAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTAATCTTGAATTTAACAGCAT
Found at i:1123002 original size:15 final size:14
Alignment explanation
Indices: 1122976--1123017 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
1122966 TTAAGTTTGT
1122976 ATATTTTATTTATA
1 ATATTTTATTTATA
1122990 ATATTTATATTTATGTA
1 ATATTT-TATTTA--TA
1123007 AT-TTTTATTTA
1 ATATTTTATTTA
1123018 GTTTGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 12 0.48
16 3 0.12
17 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
ATATTTTATTTATA
Found at i:1123244 original size:18 final size:19
Alignment explanation
Indices: 1123223--1123261 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1123213 ATATATATTA
*
1123223 ATTTTATATTTTTTA-TAT
1 ATTTTATAATTTTTACTAT
1123241 ATTTTATAATTTTTACTAT
1 ATTTTATAATTTTTACTAT
1123260 AT
1 AT
1123262 AAAGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATAATTTTTACTAT
Found at i:1124188 original size:17 final size:18
Alignment explanation
Indices: 1124168--1124204 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
1124158 ATAATTATAC
1124168 TTAATTTTTAA-TTTGGA
1 TTAATTTTTAATTTTGGA
1124185 TTAATTTTTAATTTTGGA
1 TTAATTTTTAATTTTGGA
1124203 TT
1 TT
1124205 TTTACAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (18 bp):
TTAATTTTTAATTTTGGA
Found at i:1127312 original size:17 final size:17
Alignment explanation
Indices: 1127255--1127313 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1127245 ATATTCATAC
*
1127255 TATAATAT-TAAATATA
1 TATAATATATATATATA
* *
1127271 TTTTAATATA-ATATAAA
1 -TATAATATATATATATA
* *
1127288 TTTTATATATATATATA
1 TATAATATATATATATA
1127305 TATAATATA
1 TATAATATA
1127314 AGAAAATAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 8 0.24
17 25 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATATATATATATA
Found at i:1127597 original size:26 final size:26
Alignment explanation
Indices: 1127568--1127623 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
1127558 TTTATATGTG
*
1127568 ATTAAAATATTAAATATAAATTTTTA
1 ATTAAAATATTAAATATAAAGTTTTA
* * *
1127594 ATTAAAATATTTAATTTTAAGTTTTA
1 ATTAAAATATTAAATATAAAGTTTTA
1127620 ATTA
1 ATTA
1127624 TTGAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTAAAATATTAAATATAAAGTTTTA
Found at i:1127699 original size:16 final size:16
Alignment explanation
Indices: 1127678--1127709 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1127668 AGTTTTCATA
1127678 TTTAAATTGAAATTAT
1 TTTAAATTGAAATTAT
*
1127694 TTTAAATTTAAATTAT
1 TTTAAATTGAAATTAT
1127710 GCATGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTGAAATTAT
Found at i:1127998 original size:17 final size:17
Alignment explanation
Indices: 1127968--1128000 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1127958 TTTTAAATAT
1127968 AATATGAATAAATATAA
1 AATATGAATAAATATAA
1127985 AATAT-AATATAATATA
1 AATATGAATA-AATATA
1128001 GATACAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATGAATAAATATAA
Found at i:1128346 original size:27 final size:27
Alignment explanation
Indices: 1128307--1128359 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1128297 TATTTTATAA
*
1128307 TATTTATACTATAATATTAAA-TATATT
1 TATTTATAATATAATA-TAAATTATATT
*
1128334 TATTTTTAATATAATATAAATTATAT
1 TATTTATAATATAATATAAATTATAT
1128360 AATGTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTTATAATATAATATAAATTATATT
Found at i:1131917 original size:59 final size:59
Alignment explanation
Indices: 1131825--1131939 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
1131815 AGACTTTTGC
* *
1131825 TTCACAATTTCCAAACTTTGCTTTGCATTTTGAGGTCTGTTTCATGTATTTTTCATTGT
1 TTCACAATTTCCAAAATTTGCTTTGCATTTTGAGGTATGTTTCATGTATTTTTCATTGT
1131884 TTCACAATTTCCAAAATTTGCTTTGCATTTTGAGGTATGTTTCATGTATTTTTCAT
1 TTCACAATTTCCAAAATTTGCTTTGCATTTTGAGGTATGTTTCATGTATTTTTCAT
1131940 ACCATATGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (59 bp):
TTCACAATTTCCAAAATTTGCTTTGCATTTTGAGGTATGTTTCATGTATTTTTCATTGT
Found at i:1133069 original size:24 final size:24
Alignment explanation
Indices: 1133042--1133098 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1133032 CTCTATGTAT
1133042 TCTATCTTATATCT-ACTAGAATCA
1 TCTATCTTAT-TCTGACTAGAATCA
* * *
1133066 TCTATCTAATTGTGACTATAATCA
1 TCTATCTTATTCTGACTAGAATCA
*
1133090 TCTCTCTTA
1 TCTATCTTA
1133099 CTCTTATCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (24 bp):
TCTATCTTATTCTGACTAGAATCA
Found at i:1135482 original size:2 final size:2
Alignment explanation
Indices: 1135469--1135527 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
1135459 CTTGACATAG
*
1135469 AT AT AT AC 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
1135511 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
1135528 GATGAGTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1135678 original size:15 final size:15
Alignment explanation
Indices: 1135658--1135688 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1135648 TCTTTATAAA
1135658 ACCCTAAACCTAACC
1 ACCCTAAACCTAACC
1135673 ACCCTAAACCTAACC
1 ACCCTAAACCTAACC
1135688 A
1 A
1135689 TTGTGAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (15 bp):
ACCCTAAACCTAACC
Found at i:1135735 original size:2 final size:2
Alignment explanation
Indices: 1135728--1135766 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1135718 CTGAAAAGGC
1135728 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 A
1135767 CACTTAAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1138338 original size:7 final size:7
Alignment explanation
Indices: 1138326--1138357 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
1138316 TAATTTAATT
1138326 TTTTTTA
1 TTTTTTA
1138333 TTTTTTA
1 TTTTTTA
1138340 TTTTTTA
1 TTTTTTA
1138347 TTTTTTA
1 TTTTTTA
1138354 TTTT
1 TTTT
1138358 CACTGATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:1138342 original size:21 final size:21
Alignment explanation
Indices: 1138318--1138357 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1138308 ATAAACTTTA
1138318 ATTTAATT-TTTTTTATTTTTT
1 ATTT-ATTATTTTTTATTTTTT
*
1138339 ATTTTTTATTTTTTATTTT
1 ATTTATTATTTTTTATTTT
1138358 CACTGATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (21 bp):
ATTTATTATTTTTTATTTTTT
Found at i:1139005 original size:2 final size:2
Alignment explanation
Indices: 1138998--1139034 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1138988 TCTGCCTCAA
1138998 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
1139035 CTCCTAAGGA
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:1139413 original size:19 final size:19
Alignment explanation
Indices: 1139386--1139423 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
1139376 AATATTAATA
*
1139386 TTTATAAATATATTAAAAAT
1 TTTATAAATA-AATAAAAAT
1139406 TTTA-AAATAAATAAAAAT
1 TTTATAAATAAATAAAAAT
1139424 ATATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTATAAATAAATAAAAAT
Found at i:1140013 original size:2 final size:2
Alignment explanation
Indices: 1140006--1140054 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1139996 AAATTTAGAT
1140006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1140047 TA TA TA TA
1 TA TA TA TA
1140055 AAAAAATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1140190 original size:3 final size:3
Alignment explanation
Indices: 1140182--1140213 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1140172 TTCTCAAATA
*
1140182 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1140214 CAAATCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1141510 original size:28 final size:28
Alignment explanation
Indices: 1141455--1141510 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1141445 GTTTTATTTT
*
1141455 TTTTACTTAATTTTTTTAAAATTTAATA
1 TTTTACTTAATTTTTTTAAAATTAAATA
*
1141483 TTTTATTTAA-TTTTTTAAATATTAAATA
1 TTTTACTTAATTTTTTTAAA-ATTAAATA
1141511 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTACTTAATTTTTTTAAAATTAAATA
Found at i:1142460 original size:19 final size:18
Alignment explanation
Indices: 1142438--1142476 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1142428 AAATTGGATC
1142438 AATTCAACTAAATTTTTAA
1 AATTCAA-TAAATTTTTAA
* *
1142457 AATTTAATTAATTTTTAA
1 AATTCAATAAATTTTTAA
1142475 AA
1 AA
1142477 ATTTGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTCAATAAATTTTTAA
Found at i:1146760 original size:12 final size:13
Alignment explanation
Indices: 1146743--1146771 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1146733 GTGAAAATCA
1146743 AAAATTAAAATT-
1 AAAATTAAAATTC
1146755 AAAATTAAAATTC
1 AAAATTAAAATTC
1146768 AAAA
1 AAAA
1146772 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAAATTC
Found at i:1146822 original size:35 final size:35
Alignment explanation
Indices: 1146774--1147042 Score: 481
Period size: 35 Copynumber: 7.8 Consensus size: 35
1146764 ATTCAAAAAA
1146774 AATA-AAAAATGAAGGCATGGAATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
*
1146808 AATATAAAAATGAAGGCATGGGATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
*
1146843 AATATAAAAATGAAGGCATGGGATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
*
1146878 AATATAAAAATGAAGGCATGGGATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
1146913 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
1146948 AA-ATAAAAATGAAGGCATGGAATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
1146982 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
1 AATATAAAAATGAAGGCATGGAATGATGGGCATGG
*
1147017 AATA-AAAACTGAAGGCATGGAATGAT
1 AATATAAAAATGAAGGCATGGAATGAT
1147043 AGGTATAAAA
Statistics
Matches: 230, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
34 59 0.26
35 171 0.74
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.19
Consensus pattern (35 bp):
AATATAAAAATGAAGGCATGGAATGATGGGCATGG
Found at i:1146946 original size:14 final size:14
Alignment explanation
Indices: 1146927--1146984 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 14
1146917 TAAAAATGAA
1146927 GGCATGGAATGATG
1 GGCATGGAATGATG
*
1146941 GGCATGGAAATAAAAATG
1 GGCATGG-AAT---GATG
1146959 AAGGCATGGAATGATG
1 --GGCATGGAATGATG
1146975 GGCATGGAAT
1 GGCATGGAAT
1146985 ATAAAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 17 0.47
15 3 0.08
16 3 0.08
18 3 0.08
19 3 0.08
20 7 0.19
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.19
Consensus pattern (14 bp):
GGCATGGAATGATG
Found at i:1148370 original size:79 final size:79
Alignment explanation
Indices: 1148239--1148666 Score: 678
Period size: 79 Copynumber: 5.4 Consensus size: 79
1148229 GTTAAGTTTC
* * * * **
1148239 TCAATTTTTTACAAGCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
1148304 TTATTTCTAAAACA
66 TTATTTCTAAAACA
1148318 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
*
1148383 TTATCTCTAAAACA
66 TTATTTCTAAAACA
*
1148397 TCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
*
1148462 TTATTTCCAAAACA
66 TTATTTCTAAAACA
* * * *
1148476 TCAATTATTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
1148541 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
1148555 TCAAATTTTCATAATCGGGGATAC-CCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
*
1148619 TTTTTTCTAAAACA
66 TTATTTCTAAAACA
* *
1148633 CCAATTTTTCATAATCGGGGATACTTCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
1148667 ATTTTATTTT
Statistics
Matches: 321, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
78 70 0.22
79 251 0.78
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
TTATTTCTAAAACA
Found at i:1148663 original size:51 final size:52
Alignment explanation
Indices: 1148600--1148710 Score: 154
Period size: 52 Copynumber: 2.2 Consensus size: 52
1148590 ATTTTCGAGA
1148600 GGATACTCCAACCCCGATTTT-TTTTCTAAAACACCAATTTTT-CATAATCGG
1 GGATACTCCAACCCCGATTTTATTTTCTAAAACACC-ATTTTTCCATAATCGG
* * * * *
1148651 GGATACTTCAACCCCGATTTTATTTTTTAGAATACCGTTTTTCCATAATCGG
1 GGATACTCCAACCCCGATTTTATTTTCTAAAACACCATTTTTCCATAATCGG
1148703 GGATACTC
1 GGATACTC
1148711 TAGCCCCGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
51 25 0.48
52 27 0.52
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
GGATACTCCAACCCCGATTTTATTTTCTAAAACACCATTTTTCCATAATCGG
Found at i:1148718 original size:52 final size:51
Alignment explanation
Indices: 1148600--1148744 Score: 143
Period size: 52 Copynumber: 2.8 Consensus size: 51
1148590 ATTTTCGAGA
*
1148600 GGATACTCCAACCCCGATTTTTTTTCTAAAACACCAATTTTTCATAATCGG
1 GGATACTCTAACCCCGATTTTTTTTCTAAAACACCAATTTTTCATAATCGG
* * * *
1148651 GGATACT-TCAACCCCGATTTTATTTTTTAGAATACC-GTTTTTCCATAATCGG
1 GGATACTCT-AACCCCGATTTT-TTTTCTAAAACACCAATTTTT-CATAATCGG
* * * * *
1148703 GGATACTCTAGCCCCG-TTGTTATCTCTAAAATACTAATTTTT
1 GGATACTCTAACCCCGATT-TTTTTTCTAAAACACCAATTTTT
1148745 TCTCATCGGG
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
51 35 0.46
52 40 0.53
53 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (51 bp):
GGATACTCTAACCCCGATTTTTTTTCTAAAACACCAATTTTTCATAATCGG
Found at i:1155073 original size:55 final size:54
Alignment explanation
Indices: 1154986--1155373 Score: 427
Period size: 55 Copynumber: 6.9 Consensus size: 54
1154976 TTTTCCTTTC
* *
1154986 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTCTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
* *
1155041 AAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACGCCTCTT
* * * *
1155096 AAAGCCTACATAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCC---TC---TT
* *
1155157 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTTCTCAAAGAGCAGGACGCCT-TT
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
* * * *
1155211 CAAAACCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACACCTTTT
1 -AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
* * * *
1155267 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAAGTAGAACGCTTTCTCTTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGC---CTC---TT
*
1155327 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGA
1155374 TGCTTTCTCC
Statistics
Matches: 282, Mismatches: 34, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
54 25 0.09
55 159 0.56
56 4 0.01
57 2 0.01
58 3 0.01
60 28 0.10
61 61 0.22
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTCTT
Found at i:1155199 original size:171 final size:168
Alignment explanation
Indices: 1154918--1155638 Score: 824
Period size: 171 Copynumber: 4.3 Consensus size: 168
1154908 GACGCCTTTT
* ** *
1154918 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGACACC-TTTTCTT
* *
1154983 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTCTCAAAGCCC
64 TTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCC
*
1155048 ACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
128 ACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACG
* * *
1155090 CCTCTTAAAGCCTACATAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCTTTTCTTT
* * * *
1155155 TTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAACCCA
65 TTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCCA
* * *
1155220 CACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACA
129 CACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACG
* *
1155261 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAAGTA-GA-ACGCTTTCTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAC-CTTT-TCTT
* * * *
1155324 TTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATG-CTTTC----TCC
64 TTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCC
***
1155384 TTTC--GTT--T----TTTT--GTCCTCAAAGAGCAGGACG
128 ACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACG
* *
1155415 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC---
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACACCTTTTCTTT
*
1155476 --AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAA
65 TTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCC-TCT-C----AAA
*
1155539 GCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACT
124 GCCCACACAAGTTGGTGGCAT-TTTCAGTCCTCAAAGAGCAGGACG
1155585 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTTAGTCCTCAAAGAGCAGGAC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC--AGTCCTCAAAGAGCAGGAC
1155639 GCTCTCTCCT
Statistics
Matches: 469, Mismatches: 48, Indels: 66
0.80 0.08 0.11
Matches are distributed among these distances:
148 19 0.04
149 27 0.06
150 2 0.00
151 1 0.00
154 49 0.10
155 18 0.04
156 6 0.01
157 1 0.00
159 3 0.01
161 4 0.01
163 4 0.01
165 3 0.01
167 1 0.00
168 8 0.02
169 14 0.03
170 128 0.27
171 132 0.28
172 49 0.10
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (168 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTCTTTT
TAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCCACA
CAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACG
Found at i:1155204 original size:116 final size:114
Alignment explanation
Indices: 1154886--1155373 Score: 523
Period size: 116 Copynumber: 4.2 Consensus size: 114
1154876 CTCTTTTAGC
* * *
1154886 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCT
1 CCTTTCAGTCCTCAAAGAGCAGGACACC---T-CTTTTAAAGCCCACACAAGTTGGTGGCA-TCT
*
1154951 TT-AGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
61 TTCAGTCCTCAAAGAGCAGGACGCC----T-CTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
1155009 CCTTTCAGTCCTCAAAGAGCAGGATGCCTC--TCAAAGCCCACATAAGTTGGTGGCAT-TTTCCA
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTT-CA
* *
1155071 GTCCTCAAAGAGCAGGACGCCTC-TT-AAAGCCTACATAAGTTGGTGGCA
65 GTCCTCAAAGAGCAGGACGCCTCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1155119 CCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACC---TC-TTTTAAAGCCCACACAAGTTGGTGGCATCTT
* *
1155184 TCAGTTCTCAAAGAGCAGGACG-C-CTTTCAAAACCCACACAAGTTGGTGGCA
62 TCAGTCCTCAAAGAGCAGGACGCCTCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1155235 CCTTTCAGTCTTCAAAGAGCAGGACA-C-CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAG
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAG
* * * *
1155297 TCCTCAAAAAGTAGAACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
66 TCCTCAAAGAGCAGGACGC---CTC-TTTCAAAGCCCACACAAGTTGGTGGCA
*
1155350 -CTTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTC-AGTCCTCAAAGAGCAGGA
1155374 TGCTTTCTCC
Statistics
Matches: 318, Mismatches: 29, Indels: 44
0.81 0.07 0.11
Matches are distributed among these distances:
109 19 0.06
110 73 0.23
111 3 0.01
112 1 0.00
113 4 0.01
114 6 0.02
115 49 0.15
116 88 0.28
117 47 0.15
119 1 0.00
120 1 0.00
123 26 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (114 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAG
TCCTCAAAGAGCAGGACGCCTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1155480 original size:55 final size:55
Alignment explanation
Indices: 1155396--1155640 Score: 361
Period size: 55 Copynumber: 4.4 Consensus size: 55
1155386 TCGTTTTTTT
*
1155396 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
*
1155451 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1155505 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TCTTTCA
1 GTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACT-TTTCA
* *
1155566 GTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTT-A
1 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCA
1155621 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
1155641 TCTCTCCTTT
Statistics
Matches: 174, Mismatches: 6, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
54 27 0.16
55 93 0.53
56 4 0.02
60 24 0.14
61 26 0.15
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (55 bp):
GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:1155550 original size:209 final size:206
Alignment explanation
Indices: 1155180--1156211 Score: 737
Period size: 209 Copynumber: 4.9 Consensus size: 206
1155170 GTTGGTGGCA
* * * * *
1155180 TTTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTTGGTGGCACCTTTCAGTC
1 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * * * *
1155245 TTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAAGTA
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
* *
1155310 GAACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAT
131 GGACGCTTTC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGAC
1155375 GCTTTCTCCTTTCG
193 GCTTTCTCCTTTCG
*
1155389 TTTTTTTGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
1 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
1155454 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
1155519 GGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTT-TCAGTCCTCAAAGAGCAGGA
131 GGACG-CTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCT-AGTCCTCAAAGAGCAGGA
* * *
1155583 CTCCTTTTAAAGCCCACACAAGTTGGTGGCA
192 C-GC-TTT------CTC-C---TT--T--CG
* * * * * *
1155614 CTTCTTAGTCCTCAAAGAGCAGGACG-C---T----CTCTC-C---TT--TCGC-CTTTT-TGTC
1 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * *
1155663 CTCAAAGAGCAGGACGTCTTTCAAAACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGC
* * *
1155728 AGGACG----CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGCCCTCAAAAAGTAGGACG
130 AGGACGCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACG
1155788 CTTTCT-C--T--
194 CTTTCTCCTTTCG
** * * * ** ** * *** * ** **
1155796 TTTTAAAGCCCACACA-AGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
1 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAG-CC-C--ACA-CA--A-G---T-TGGTGG
* * * * *
1155860 CGTCTTTT-TGTCATCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
54 C-ACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCA
*
1155924 GTCCTCAAAGAGCAGAACG----CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
117 GTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTC
* *
1155985 AAAGAGCAGGACGCTCTCTCATTTCG
181 AAAGAGCAGGACGCTTTCTCCTTTCG
*** * * * *
1156011 CCCTTTAGT-CGCAAAGAGCAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCTCAGTC
1 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * * * * *
1156075 CTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGGGGCATCTTCCAGTCTTCA
66 CTCAAAGAGCAGGACGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCA
* * * *
1156140 AAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGA
124 AAGAGCAGGACG-CTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCT-AGTCCTCAAAGA
1156205 GCAGGAC
186 GCAGGAC
1156212 ACACTTCTTT
Statistics
Matches: 654, Mismatches: 97, Indels: 138
0.74 0.11 0.16
Matches are distributed among these distances:
181 5 0.01
182 9 0.01
186 1 0.00
190 1 0.00
191 1 0.00
193 1 0.00
195 2 0.00
201 3 0.00
202 5 0.01
203 36 0.06
204 35 0.05
205 1 0.00
206 1 0.00
207 3 0.00
208 10 0.02
209 361 0.55
210 60 0.09
211 10 0.02
213 4 0.01
214 12 0.02
215 57 0.09
216 1 0.00
217 5 0.01
218 1 0.00
221 3 0.00
223 1 0.00
224 1 0.00
225 24 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (206 bp):
TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
GGACGCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCT
TTCTCCTTTCG
Found at i:1155595 original size:115 final size:115
Alignment explanation
Indices: 1155415--1155650 Score: 397
Period size: 115 Copynumber: 2.0 Consensus size: 115
1155405 GAGCAGGACG
1155415 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1155480 CCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGC-CTTCT
66 CCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACGCTC-TCT
* *
1155530 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
1155594 GCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCT
65 GCCCACACAAGTTGGTGGCACTTC-TAGTCCTCAAAGAGCAGGACGCTCTCT
1155646 CCTTT
1 CCTTT
1155651 CGCCTTTTTG
Statistics
Matches: 115, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
114 5 0.04
115 80 0.70
116 29 0.25
117 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (115 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
CCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCTCTCT
Found at i:1155602 original size:264 final size:266
Alignment explanation
Indices: 1155153--1155847 Score: 1041
Period size: 264 Copynumber: 2.6 Consensus size: 266
1155143 CACCTTTTCT
* * *
1155153 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
* *
1155218 CACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGA-----CACCTTTTAAAGCCCACAC
66 CACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACAC
* * * *
1155278 AAGTTGGTGGCA-CCTTCAGTCCTCAAAAAGTAGAACGCTTTCTCTTTTTAAAGCCCACACAAGT
130 AAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGA--C-TTCTCTTTTTAAAGCCCACACAAGT
* * **
1155342 TGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCGTTTTTTTGTCCTCAAAGA
192 TGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTGTCCTCAAAGA
1155407 GCAGGACGCC
257 GCAGGACGCC
1155417 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
1155482 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAC
66 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACAC
1155547 AAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGAC-TC-C-TTTTAAAGCCCACACAAGTTGG
130 AAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACTTCTCTTTTTAAAGCCCACACAAGTTGG
*
1155609 TGGCACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTGTCCTCAAAGAGCA
195 TGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTGTCCTCAAAGAGCA
*
1155674 GGACGTC
260 GGACGCC
* * *
1155681 TTTCAAAACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
* * * * *
1155746 CACACAAGTTGGTGGCACCTTTAGCCCTCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACAC
66 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGC-TTCTCCTTTTAAAGCCCACAC
*
1155811 AAGTTGGTGGCAT-TTCCTAGTCCTCAAAGAGCAGGAC
130 AAGTTGGTGGCATCTTTC-AGTCCTCAAAGAGCAGGAC
1155848 GCTCTCTCCT
Statistics
Matches: 398, Mismatches: 24, Indels: 18
0.90 0.05 0.04
Matches are distributed among these distances:
263 24 0.06
264 321 0.81
265 1 0.00
266 2 0.01
268 1 0.00
269 30 0.08
270 19 0.05
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (266 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACA
AGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACTTCTCTTTTTAAAGCCCACACAAGTTGGT
GGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTGTCCTCAAAGAGCAG
GACGCC
Found at i:1155721 original size:55 final size:55
Alignment explanation
Indices: 1155660--1155848 Score: 229
Period size: 55 Copynumber: 3.3 Consensus size: 55
1155650 TCGCCTTTTT
* *
1155660 GTCCTCAAAGAGCAGGACGTCTTTCAAAACCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
* *
1155715 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-A
1 GTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * *
1155769 GCCCTCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCTA
1 GTCCTCAAAGAGCAGGACG-----TC-TTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-A
1155830 GTCCTCAAAGAGCAGGACG
1 GTCCTCAAAGAGCAGGACG
1155849 CTCTCTCCTT
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
54 17 0.15
55 49 0.43
59 3 0.03
60 27 0.24
61 17 0.15
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
GTCCTCAAAGAGCAGGACGTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:1155908 original size:154 final size:154
Alignment explanation
Indices: 1155718--1156152 Score: 575
Period size: 154 Copynumber: 2.9 Consensus size: 154
1155708 CTTTTCAGTC
* * *
1155718 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGCCCTCAAAAAGT
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
1155782 AGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGA
66 AGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGA
* * * *
1155847 CGCTCTCTCCTTTCGTCTTTTTGT
131 CGCTCTCTCATTTCGCCCTTTAGT
* * *
1155871 CATCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
1 C-TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
* *
1155936 CAGAACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGG
65 CAGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGG
1155995 ACGCTCTCTCATTTCGCCCTTTAGT
130 ACGCTCTCTCATTTCGCCCTTTAGT
* * *
1156020 CGCAAAGAGCAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCA-CTTCTCAGTCCTCAAAGAG
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAG
* * * * * *
1156084 CAGGATGCTTTCT-TTTTGCAAATCCCACACTAGTTGGGGGCATCTTCC-AGTCTTCAAAGAGCA
65 CAGGACGCTTTCTCTTTT-TAAAGCCCACACAAGTTGGTGGCAT-TTCCTAGTCCTCAAAGAGCA
1156147 GGACGC
128 GGACGC
1156153 CTTTTCTTTT
Statistics
Matches: 245, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
147 2 0.01
148 59 0.24
149 71 0.29
150 1 0.00
151 1 0.00
152 1 0.00
153 4 0.02
154 86 0.35
155 20 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (154 bp):
CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
AGGACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGA
CGCTCTCTCATTTCGCCCTTTAGT
Found at i:1155930 original size:264 final size:256
Alignment explanation
Indices: 1155153--1155998 Score: 799
Period size: 264 Copynumber: 3.2 Consensus size: 256
1155143 CACCTTTTCT
* * *
1155153 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTTCTCAAAGAGCAGGACGCCTTTCAAAACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
* * * *
1155218 CACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGA------CACCTTTTAAAGCCCACA
66 CACACAAGTTGGTGGCACC-TTCAGCCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACA
* * * *
1155277 CAAGTTGGTGGCACCTT-CAGTCCTCAAAAAGTAGAACGCTTTCTCTTTTTAAAGCCCACACAAG
130 CAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGA--C--TC-C---TT--A-CCCACAC-A-
* * * * ** * ** *
1155341 TTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCGTTTTTTTGTCCTCAAAG
182 TT-GTCGCACTTCTTAGTCATCAAAGAGCAGGACGCTCCCACCTTTCGCCTTTTAGTCCTCAAAG
1155406 AGCAGGACGCC
246 AGCAGGACGCC
1155417 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
* *
1155482 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACAC
66 CACACAAGTTGGTGGCACCTTCAGCCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACAC
* *
1155547 AAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGG
131 AAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGACTCC--TT--A-CCCACAC-A-TT-GTCG
* * * *
1155612 CACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTGTCCTCAAAGAGCAGGA
188 CACTTCTTAGTCATCAAAGAGCAGGACGCTCCCACCTTTCGCCTTTTAGTCCTCAAAGAGCAGGA
*
1155677 CGTC
253 CGCC
* * *
1155681 TTTCAAAACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
* * * *
1155746 CACACAAGTTGGTGGCACCTTTAGCCCTCAAAAAGTAGGACGCTTTCTCTTTTTAAAGCCCACAC
66 CACACAAGTTGGTGGCACCTTCAGCCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACAC
* * * *
1155811 AAGTTGGTGGCAT-TTCCTAGTCCTCAAAGAGCAGGAC-GC-T-CTCTC-C-TT-TCG-TCTT-T
131 AAGTTGGTGGCATCTTCC-AGTCCTCAAAGAGCAGGACTCCTTACCCACACATTGTCGCACTTCT
* *
1155867 TTGTCATCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAA
195 TAGTCATCAAAGAGCAGGACG-C--T-----CCCAC-C---TT--TCGC-CTTTT-AGTCCTCAA
*
1155932 AGAGCAGAACGCC
244 AGAGCAGGACGCC
*
1155945 TTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGACGC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGC
1155999 TCTCTCATTT
Statistics
Matches: 516, Mismatches: 41, Indels: 50
0.85 0.07 0.08
Matches are distributed among these distances:
248 20 0.04
249 4 0.01
250 2 0.00
251 1 0.00
252 2 0.00
255 1 0.00
256 6 0.01
257 1 0.00
260 3 0.01
262 3 0.01
263 32 0.06
264 388 0.75
265 1 0.00
266 2 0.00
268 1 0.00
269 33 0.06
270 16 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (256 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
CACACAAGTTGGTGGCACCTTCAGCCCTCAAAAAGCAGGACGCCTTCTCCTTTTAAAGCCCACAC
AAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGACTCCTTACCCACACATTGTCGCACTTCTT
AGTCATCAAAGAGCAGGACGCTCCCACCTTTCGCCTTTTAGTCCTCAAAGAGCAGGACGCC
Found at i:1155933 original size:55 final size:55
Alignment explanation
Indices: 1155873--1155998 Score: 200
Period size: 55 Copynumber: 2.3 Consensus size: 55
1155863 CTTTTTGTCA
* *
1155873 TCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCC
1 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCC
* *
1155928 TCAAAGAGCAGAACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
1 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
1155983 TCAAAGAGCAGGACGC
1 TCAAAGAGCAGGACGC
1155999 TCTCTCATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 64 0.98
56 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (55 bp):
TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
Found at i:1156135 original size:61 final size:60
Alignment explanation
Indices: 1156037--1156211 Score: 205
Period size: 61 Copynumber: 2.9 Consensus size: 60
1156027 AGCAGGATGC
*
1156037 CTTTT-AAAGCCCACA-TAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATG-C-TTT
1 CTTTTCAAAGCCCACACT-AGTTGGTGGCACTTC-CAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1156095 CTTTTTGCAAATCCCACACTAGTTGGGGGCATCTTCCAGTCTTCAAAGAGCAGGACGCCTTTT
1 C-TTTT-CAAAGCCCACACTAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1156158 CTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
1 CTTTTCAAAGCCCACACTAGTTGGTGGCAC-TTCCAGTCCTCAAAGAGCAGGAC
1156212 ACACTTCTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
58 1 0.01
59 4 0.04
60 1 0.01
61 79 0.80
62 10 0.10
63 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (60 bp):
CTTTTCAAAGCCCACACTAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:1156143 original size:473 final size:481
Alignment explanation
Indices: 1154918--1156213 Score: 1484
Period size: 473 Copynumber: 2.7 Consensus size: 481
1154908 GACGCCTTTT
* * * *
1154918 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT-AGTCCTCAAAGAGCAGGATGCCTTTTTCC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCA-GA--AC----GCC
*
1154982 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC-TCTCAAAGC
58 TTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTCTC----C
** * * * * * *
1155046 CCACATAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCTACATAAG
118 TTAC--AAGTT-GTCGCACCTTT-CAGTCCGCAAAGAGCAGGATGCCTTTTAAAGCCCACATAAG
* * *
1155110 TTGGTGGCACCTTC-CAGTCCTCAAAGAGCAGGACACCTTTTCTTTTT-AAAGCCCACACAAGTT
179 TTGGTGGCA-CTTCTCAGTCCTCAAAGAGCAGGA-AGC-TTTCTTTTTCAAATCCCACACTAGTT
* * *
1155173 GGTGGCATTTTTCAGT-TCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTTGGTGGCACC
241 GG-GGCATCTTTCAGTCT-TCAAAGAGCAGGACGTCTTTCAAAACCCACACAAGTTGGTGGCACT
* *
1155237 TTTCAGTCTTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
304 TTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGCCCTC
1155302 AAAAAGTAGAACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAG
369 AAAAAGTAGAACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAG
* * * *
1155367 AGCAGGATGCTTTCTCCTTTCGTTTTTTTGTCCTCAAAGAGCAGGACG
434 AGCAGGACGCTCTCTCCTTTCGTCTTTTTGTCATCAAAGAGCAGGACG
* *
1155415 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGAACGCCTTTCAAAG
1155480 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCAC
66 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCC--TT---------
* * * *
1155545 ACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACT-CCTTTTAAAGCCCACACAAGTTGG
120 ACAAGTT-GTCGCACCTTTCAGTCCGCAAAGAGCAGGA-TGCCTTTTAAAGCCCACATAAGTTGG
* * *
1155609 TGGCACTTCTTAGTCCTCAAAGAGCAGGACGC--TC----TC---T----C-CT--TT--CGC--
183 TGGCACTTCTCAGTCCTCAAAGAGCAGGAAGCTTTCTTTTTCAAATCCCACACTAGTTGGGGCAT
** *
1155654 CTTTTTGTCCTCAAAGAGCAGGACGTCTTTCAAAACCCACACAAGTTGGTGGCACTTTTCAGTCC
248 CTTTCAGTCTTCAAAGAGCAGGACGTCTTTCAAAACCCACACAAGTTGGTGGCACTTTTCAGTCC
* *
1155719 TCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGCCCTCAAAAAGTAG
313 TCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGCCCTCAAAAAGTAG
* *
1155784 GACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTCAAAGAGCAGGACG
378 AACGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
1155849 CTCTCTCCTTTCGTCTTTTTGTCATCAAAGAGCAGGACG
443 CTCTCTCCTTTCGTCTTTTTGTCATCAAAGAGCAGGACG
* *
1155888 TCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGAACGCCTTTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGAACGCCTTTCAAAG
1155953 CCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG-C-TCT-C-T-C-A-TT-T
66 CCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTACAAGTTGT
1156009 CGC-CCTTT-AGT-CGCAAAGAGCAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCTC
129 CGCACCTTTCAGTCCGCAAAGAGCAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCTC
* *
1156071 AGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGGGGCATCTTCCAGTC
194 AGTCCTCAAAGAGCAGGAAGCTTTCTTTTT-CAAATCCCACACTAGTT-GGGGCATCTTTCAGTC
*
1156136 TTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGA-CCACACGAGTTGGTGGCACTTTTCAGTCCTC
257 TTCAAAGAGCAGGACG-----TC-TTTCAAA-ACCCACACAAGTTGGTGGCACTTTTCAGTCCTC
1156200 AAAGAGCAGGACAC
315 AAAGAGCAGGACAC
1156214 ACTTCTTTCC
Statistics
Matches: 698, Mismatches: 51, Indels: 118
0.81 0.06 0.14
Matches are distributed among these distances:
450 1 0.00
451 66 0.09
452 3 0.00
453 6 0.01
454 3 0.00
456 2 0.00
457 2 0.00
458 2 0.00
461 1 0.00
465 1 0.00
466 2 0.00
468 3 0.00
471 3 0.00
472 6 0.01
473 320 0.46
474 20 0.03
475 2 0.00
478 4 0.01
479 50 0.07
480 2 0.00
481 1 0.00
486 1 0.00
487 1 0.00
489 24 0.03
490 35 0.05
491 2 0.00
494 6 0.01
495 75 0.11
496 8 0.01
497 46 0.07
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (481 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGAACGCCTTTCAAAG
CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTACAAGTTGTCG
CACCTTTCAGTCCGCAAAGAGCAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCTCAG
TCCTCAAAGAGCAGGAAGCTTTCTTTTTCAAATCCCACACTAGTTGGGGCATCTTTCAGTCTTCA
AAGAGCAGGACGTCTTTCAAAACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
CACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGCCCTCAAAAAGTAGAACGCTTTCTCTT
TTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCG
TCTTTTTGTCATCAAAGAGCAGGACG
Found at i:1156317 original size:47 final size:47
Alignment explanation
Indices: 1156187--1156303 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
1156177 GTTGGTGGCA
* *
1156187 CTTTTCAGTCCTCAAAGAGCAGGACACACTTCTTTCCCTTTTTTTCT
1 CTTTTCAGTCCTCAAAGAGCAGGACAAACTTCTTTCCCTTCTTTTCT
1156234 CTTTTCAGTCCTCAAAGAGCAGGACAAACTTCTTTCCCTTCTTTTCT
1 CTTTTCAGTCCTCAAAGAGCAGGACAAACTTCTTTCCCTTCTTTTCT
1156281 CTTTT-A-TCCTCAAAGAGCAGGAC
1 CTTTTCAGTCCTCAAAGAGCAGGAC
1156304 GTACTTTATT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
45 17 0.25
46 1 0.01
47 50 0.74
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (47 bp):
CTTTTCAGTCCTCAAAGAGCAGGACAAACTTCTTTCCCTTCTTTTCT
Found at i:1159884 original size:52 final size:51
Alignment explanation
Indices: 1159603--1159902 Score: 171
Period size: 52 Copynumber: 5.7 Consensus size: 51
1159593 CAATTGTTCA
* * *
1159603 TAATCGGGGATACTCCAATCCCGGA-TTTATTTTCAAAACACTAATTTTCTTT
1 TAATCGGGGATACTCCAA-CCCCGATTTTATTTCCAAAACACTAATTTTC-CT
* * *
1159655 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-ACATCAATTTTTCA
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC-T-AATTTTCCT
* * * * * ***** * * * **
1159707 CAACCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA--CCCCAT
1 TAATCGGGGATACTCCAACCCCG--ATTTTATTTCCAAAACACTAATTTTCC-T
* * * * * *
1159759 TACCTCTGACGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTGA-TTTCCA
1 TA-ATC-G--GGGATACTCCAACCCCGA-TTTTATTTCCAAAACACTAATTTTCCT
* * *
1159813 CAATCGGGGATACTTCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCC-T
1159865 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
1159903 ACTTCAATTT
Statistics
Matches: 175, Mismatches: 57, Indels: 32
0.66 0.22 0.12
Matches are distributed among these distances:
50 30 0.17
51 13 0.07
52 86 0.49
53 12 0.07
54 17 0.10
55 3 0.02
56 14 0.08
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCT
Found at i:1159928 original size:52 final size:52
Alignment explanation
Indices: 1159769--1159936 Score: 184
Period size: 52 Copynumber: 3.3 Consensus size: 52
1159759 TACCTCTGAC
* * *
1159769 GGGATACTCCAACCCC-AGCTTTATTTCCAAAATA-TTGA-TTTCCACAATCG
1 GGGATACTCCAACCCCGA-TTTTATTTCCAAAACACTTAATTTTCCACAATCG
* * **
1159819 GGGATACTTCAACCCCGATTTTATTTTCAAAACAC-TAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTTAATTTTCC-ACAATCG
* *
1159871 GGGATACTCCAACCCCGATTTTATTTCCAAAA-ACTTCAATTTTTCACAACCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTT-AATTTTCCACAATCG
*
1159923 AGGATACTCCAACC
1 GGGATACTCCAACC
1159937 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
50 30 0.31
51 8 0.08
52 53 0.54
53 7 0.07
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACTTAATTTTCCACAATCG
Found at i:1159966 original size:210 final size:210
Alignment explanation
Indices: 1159604--1160046 Score: 719
Period size: 210 Copynumber: 2.1 Consensus size: 210
1159594 AATTGTTCAT
* *
1159604 AATCGGGGATACTCCAATCCCGGATTTATTTTCAAAACACTAATTTTCTTTTAATCGGGGATACT
1 AATCGGGGATACTCCAA-CCCCGATTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGATACT
*
1159669 CCAACTCCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
65 CCAACCCCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
* *
1159734 TTCATCGGGGATACTCCAACCCCATTACCTCTGACGGGATACTCCAACCCC-AGCTTTATTTCCA
130 TTCATCGGGGATACTCCAACCCCATCACCTCCGACGGGATACTCCAACCCCGA-CTTTATTTCCA
*
1159798 AAATATTGATTTC-CAC
194 AAATATTAATTTCTCAC
*
1159814 AATCGGGGATACTTCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGA-TTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGATACT
*
1159879 CCAACCCCGATTTTATTTCCAAAAACTTCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
65 CCAACCCCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAACCTCGTTAT
* * * *
1159944 TTCATTGGGGATACTCCAACCCCGTCACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAA
130 TTCATCGGGGATACTCCAACCCCATCACCTCCGACGGGATACTCCAACCCCGACTTTATTTCCAA
*
1160009 AATATTAATTTCTCAT
195 AATATTAATTTCTCAC
*
1160025 AATTGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
1160047 TTATTTCCGA
Statistics
Matches: 215, Mismatches: 15, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
209 5 0.02
210 187 0.87
211 23 0.11
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (210 bp):
AATCGGGGATACTCCAACCCCGATTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGATACTC
CAACCCCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAACCTCGTTATT
TCATCGGGGATACTCCAACCCCATCACCTCCGACGGGATACTCCAACCCCGACTTTATTTCCAAA
ATATTAATTTCTCAC
Found at i:1160061 original size:107 final size:108
Alignment explanation
Indices: 1159660--1160063 Score: 318
Period size: 108 Copynumber: 3.8 Consensus size: 108
1159650 TCTTTTAATC
* * * *
1159660 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACATCAATTTTTCACAACCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACTTCAATTTCTCACAACCGAGGATACTCCAA
* ** * * *
1159725 CCTCGTTATTTCATCGGGGATACTCCAACCCCATTACCTCTGA
66 CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTCACCTCCGA
* * * * *
1159768 CGGGATACTCCAACCCC-AGCTTTATTTCCAAAATA-TT-GATTTC-CACAATCGGGGATACTTC
1 GGGGATACTCCAACCCCGA-CTTTATTTCCAAAA-ACTTCAATTTCTCACAACCGAGGATACTCC
* * ** * * *
1159829 AACCCCGATTTTATTTTCA-A----A-ACACTAATTTTCCTTTA-AT-C--
64 AACCCCG---TTA-TTTCAGAGGGGATACTCCAA--CCCCGTCACCTCCGA
* *
1159870 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACTTCAATTTTTCACAACCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACTTCAATTTCTCACAACCGAGGATACTCCAA
* **
1159935 CCTCGTTATTTCATTGGGGATACTCCAACCCCGTCACCTCCGA
66 CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTCACCTCCGA
* * ** *
1159978 GGGGATACTCCAACCCCGACTTTATTTCTAAAATA-TT-AATTTCTCATAATTGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAA-ACTTCAATTTCTCACAACCGAGGATACTCCA
*
1160041 ACCCCGTTATTTCCGAGGGGATA
65 ACCCCGTTATTTCAGAGGGGATA
1160064 TTTTAATCCC
Statistics
Matches: 228, Mismatches: 45, Indels: 47
0.71 0.14 0.15
Matches are distributed among these distances:
100 5 0.02
101 4 0.02
102 31 0.14
103 5 0.02
104 30 0.13
105 4 0.02
106 32 0.14
107 45 0.20
108 62 0.27
109 5 0.02
110 5 0.02
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACTTCAATTTCTCACAACCGAGGATACTCCAA
CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTCACCTCCGA
Found at i:1160081 original size:79 final size:79
Alignment explanation
Indices: 1159947--1160130 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 79
1159937 TCGTTATTTC
* **
1159947 ATTGGGGATACTCCAACCCCGTCACCTCCGAGGGGATACTCCAACCCCGACTTTATTT-CTAAAA
1 ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCT--AA
* *
1160011 T-ATTAATTTCTCATA
64 TCATCAATTTCTCACA
* ** * *
1160026 ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATATTTTAATCCCGATTTTATTTCCTAATC
1 ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCTAATC
* *
1160091 ATCGATTTTTCACA
66 ATCAATTTCTCACA
**
1160105 ACCGGGGATACTCCAACCCCGTTATT
1 ATTGGGGATACTCCAACCCCGTTATT
1160131 ATCTCCAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 3 0.03
79 84 0.94
80 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (79 bp):
ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCTAATC
ATCAATTTCTCACA
Found at i:1161176 original size:21 final size:21
Alignment explanation
Indices: 1161146--1161294 Score: 99
Period size: 21 Copynumber: 8.1 Consensus size: 21
1161136 ATTAAAAAAA
1161146 AATA-AAAAATGAAGGCATGG
1 AATATAAAAATGAAGGCATGG
1161166 AATATAAAAATGAAGGCATGG
1 AATATAAAAATGAAGGCATGG
* *
1161187 -A-AT---GATG--GGCAAGG
1 AATATAAAAATGAAGGCATGG
1161201 AATATAAAAATGAAGGCATGG
1 AATATAAAAATGAAGGCATGG
*
1161222 -A-AT---GATG--GGCATGG
1 AATATAAAAATGAAGGCATGG
1161236 AATATAAAAATGAAGGCATGG
1 AATATAAAAATGAAGGCATGG
*
1161257 -A-AT---GATG--GGCATGG
1 AATATAAAAATGAAGGCATGG
*
1161271 AATATAAAAATGAAGGAATGG
1 AATATAAAAATGAAGGCATGG
1161292 AAT
1 AAT
1161295 GATGGGCATG
Statistics
Matches: 98, Mismatches: 9, Indels: 43
0.65 0.06 0.29
Matches are distributed among these distances:
14 20 0.20
15 3 0.03
16 15 0.15
19 15 0.15
20 7 0.07
21 38 0.39
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.19
Consensus pattern (21 bp):
AATATAAAAATGAAGGCATGG
Found at i:1161204 original size:35 final size:35
Alignment explanation
Indices: 1161159--1161334 Score: 327
Period size: 35 Copynumber: 5.1 Consensus size: 35
1161149 AAAAAATGAA
1161159 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
*
1161194 GGCAAGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1161229 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
*
1161264 GGCATGGAATATAAAAATGAAGGAATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1161299 GGCATGGAATA-AAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1161333 GG
1 GG
1161335 TATAAAAATG
Statistics
Matches: 137, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
34 24 0.18
35 113 0.82
ACGTcount: A:0.44, C:0.05, G:0.32, T:0.19
Consensus pattern (35 bp):
GGCATGGAATATAAAAATGAAGGCATGGAATGATG
Found at i:1161341 original size:28 final size:29
Alignment explanation
Indices: 1161162--1161354 Score: 145
Period size: 35 Copynumber: 5.9 Consensus size: 29
1161152 AAATGAAGGC
*
1161162 ATGGAATATAAAAATGAAGGCATGGAATG
1 ATGGGATATAAAAATGAAGGCATGGAATG
1161191 ATGGGCAAGGAATATAAAAATGAAGGCATGGAATG
1 AT--G---GG-ATATAAAAATGAAGGCATGGAATG
1161226 ATGGGCATGGAATATAAAAATGAAGGCATGGAATG
1 AT--G---GG-ATATAAAAATGAAGGCATGGAATG
*
1161261 ATGGGCATGGAATATAAAAATGAAGGAATGGAATG
1 AT--G---GG-ATATAAAAATGAAGGCATGGAATG
1161296 ATGGGCATGGAATAAAAAATGAAGGCATGGAATG
1 ATGGG-AT---AT-AAAAATGAAGGCATGGAATG
*
1161330 ATGGG-TATAAAAATGAAAGCATGGA
1 ATGGGATATAAAAATGAAGGCATGGA
1161355 CGAAAATGAG
Statistics
Matches: 148, Mismatches: 6, Indels: 21
0.85 0.03 0.12
Matches are distributed among these distances:
28 16 0.11
29 4 0.03
30 4 0.03
31 1 0.01
32 1 0.01
33 3 0.02
34 25 0.17
35 94 0.64
ACGTcount: A:0.46, C:0.05, G:0.31, T:0.19
Consensus pattern (29 bp):
ATGGGATATAAAAATGAAGGCATGGAATG
Found at i:1162618 original size:28 final size:27
Alignment explanation
Indices: 1162551--1162620 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
1162541 TTTTAGAATC
**
1162551 GGGGATACTCCAACCCCATTAATCATC
1 GGGGATACTCCAACCCCATTAATCAGA
* * *
1162578 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCATTA-ATCAGA
1162606 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1162621 TCGACTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTAATCAGA
Found at i:1162679 original size:79 final size:79
Alignment explanation
Indices: 1162575--1163383 Score: 1334
Period size: 79 Copynumber: 10.3 Consensus size: 79
1162565 CCCATTAATC
* **
1162575 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1162640 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * *
1162654 ATTGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1162719 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
1162733 ATCGGGGATACTCCAATCCCTTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1162798 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
1162812 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGG-CTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1162876 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
1162890 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGG-CTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1162954 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* ** *
1162968 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATCTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
1163033 ATCAAATTTTCATA
66 ATCAATTTTTCATA
* * * * *
1163047 ATCAGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACGCTGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1163112 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
1163126 ATCGGGGATACTCCAACCCCTTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1163191 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * *
1163205 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTTTTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
1163270 ACCAATTTTTCATA
66 ATCAATTTTTCATA
*
1163284 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCATCCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1163349 ATCAATTTTTCATA
66 ATCAATTTTTCATA
*
1163363 ATCGGGGATACTCTAACCCCG
1 ATCGGGGATACTCCAACCCCG
1163384 ATTTTATTTT
Statistics
Matches: 682, Mismatches: 47, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
78 153 0.22
79 529 0.78
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ATCAATTTTTCATA
Found at i:1163391 original size:51 final size:52
Alignment explanation
Indices: 1163315--1163429 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
1163305 TTATTTCCGA
* * *
1163315 GGGGATACTCCATCCCCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATC
* * **
1163366 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
1163418 GGGGATACTCTA
1 GGGGATACTCTA
1163430 GCCCTGTTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
51 27 0.49
52 28 0.51
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
Found at i:1167871 original size:16 final size:16
Alignment explanation
Indices: 1167843--1167874 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1167833 TATTTAAAAT
1167843 AATTTTTATTCAGAAC
1 AATTTTTATTCAGAAC
1167859 AATTTTTATTCAGAAC
1 AATTTTTATTCAGAAC
1167875 TACCCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
AATTTTTATTCAGAAC
Found at i:1167961 original size:32 final size:32
Alignment explanation
Indices: 1167901--1167962 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1167891 ACCTTTATAA
* * **
1167901 AACAATATCTTCATGGAATAGCTAATTTTTAT
1 AACAATACCTTCATGGAACAAATAATTTTTAT
*
1167933 AACAATACCTTCATGGAACAAATCATTTTT
1 AACAATACCTTCATGGAACAAATAATTTTT
1167963 TAAAGCAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (32 bp):
AACAATACCTTCATGGAACAAATAATTTTTAT
Found at i:1168416 original size:23 final size:23
Alignment explanation
Indices: 1168376--1168423 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1168366 TAGAATTTTG
1168376 TATAATTATGAACGTAG-AAATT
1 TATAATTATGAACGTAGAAAATT
**
1168398 TATAATTTATGAATTTAGAAAATT
1 TATAA-TTATGAACGTAGAAAATT
1168422 TA
1 TA
1168424 GAAAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 10 0.45
24 7 0.32
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (23 bp):
TATAATTATGAACGTAGAAAATT
Found at i:1169262 original size:17 final size:16
Alignment explanation
Indices: 1169230--1169280 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
1169220 ATATGGGTGG
1169230 TTTTTATAAGAAAAGTAGA
1 TTTTT-TAA-AAAAGTA-A
1169249 TTTTTTAAAAAAGTTAA
1 TTTTTTAAAAAAG-TAA
*
1169266 -TCTTTAAAAAAGTAA
1 TTTTTTAAAAAAGTAA
1169281 AAAGTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 11 0.37
17 6 0.20
18 5 0.17
19 5 0.17
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (16 bp):
TTTTTTAAAAAAGTAA
Found at i:1169671 original size:2 final size:2
Alignment explanation
Indices: 1169666--1169700 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1169656 ATACGAAAAC
1169666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1169701 GCTGTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1173650 original size:9 final size:9
Alignment explanation
Indices: 1173612--1173659 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
1173602 TATTATTATT
*
1173612 ATTATTATC
1 ATTATCATC
*
1173621 ATCATCATC
1 ATTATCATC
* *
1173630 ATCATCACC
1 ATTATCATC
1173639 ATTATCATC
1 ATTATCATC
*
1173648 ATTATCCTC
1 ATTATCATC
1173657 ATT
1 ATT
1173660 TGCGTTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (9 bp):
ATTATCATC
Found at i:1175833 original size:19 final size:20
Alignment explanation
Indices: 1175809--1175848 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1175799 TTATTTGCGA
* *
1175809 TGAAAT-ATTTTGTCAAAAT
1 TGAAATGATTATGGCAAAAT
1175828 TGAAATGATTATGGCAAAAT
1 TGAAATGATTATGGCAAAAT
1175848 T
1 T
1175849 TTTCTTCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TGAAATGATTATGGCAAAAT
Found at i:1176327 original size:70 final size:70
Alignment explanation
Indices: 1176214--1176354 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
1176204 ATTGATTGGA
1176214 AATAATTAGGTGTATCAAAATGTAACTTCTTGACCAACGTCTGTTAGGTCAAGTAGTAAGGAGCT
1 AATAATTAGGTGTATCAAAATGTAACTTCTTGACCAACGTCTGTTAGGTCAAGTAGTAAGGAGCT
1176279 TAGTG
66 TAGTG
1176284 AATAATTAGGTGTATCAAAATGTAACTTCTTGACCAACGTCTGTTAGGTCAAGTAGTAAGGAGCT
1 AATAATTAGGTGTATCAAAATGTAACTTCTTGACCAACGTCTGTTAGGTCAAGTAGTAAGGAGCT
1176349 TAGTG
66 TAGTG
1176354 A
1 A
1176355 CCTTTCAGTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (70 bp):
AATAATTAGGTGTATCAAAATGTAACTTCTTGACCAACGTCTGTTAGGTCAAGTAGTAAGGAGCT
TAGTG
Found at i:1181515 original size:16 final size:16
Alignment explanation
Indices: 1181491--1181522 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1181481 AAGACCGAAC
1181491 CGTTATGAATTTAAAT
1 CGTTATGAATTTAAAT
*
1181507 CGTTTTGAATTTAAAT
1 CGTTATGAATTTAAAT
1181523 TATTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
CGTTATGAATTTAAAT
Found at i:1182276 original size:12 final size:12
Alignment explanation
Indices: 1182259--1182285 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1182249 TCTGTTTCCG
1182259 CTAAATGATAAA
1 CTAAATGATAAA
1182271 CTAAATGATAAA
1 CTAAATGATAAA
1182283 CTA
1 CTA
1182286 TGCTCTGTAT
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:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (12 bp):
CTAAATGATAAA
Found at i:1184832 original size:27 final size:28
Alignment explanation
Indices: 1184779--1184837 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
1184769 ACTTTTACTC
* *
1184779 AATTTAAAAATAATTTTGTAGCTAAATT
1 AATTTAAAAATAAATTTGTAACTAAATT
1184807 AATTTAAAAATAACATTT-TAAC-AAATT
1 AATTTAAAAATAA-ATTTGTAACTAAATT
1184834 AATT
1 AATT
1184838 CTATTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.32
28 16 0.57
29 3 0.11
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (28 bp):
AATTTAAAAATAAATTTGTAACTAAATT
Found at i:1185029 original size:4 final size:4
Alignment explanation
Indices: 1185020--1185045 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1185010 ATTATTGGTT
1185020 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
1185046 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:1185966 original size:14 final size:14
Alignment explanation
Indices: 1185899--1185958 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
1185889 GTCATGTTTG
1185899 TAAATTAATTTTATTTT
1 TAAATT-ATTTTA--TT
* *
1185916 TAAATTTTTTTGTT
1 TAAATTATTTTATT
* *
1185930 AAAAGTATTTTATT
1 TAAATTATTTTATT
1185944 TAAATTATTTTATT
1 TAAATTATTTTATT
1185958 T
1 T
1185959 TATTTATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 25 0.71
16 4 0.11
17 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TAAATTATTTTATT
Found at i:1186004 original size:186 final size:186
Alignment explanation
Indices: 1185787--1186164 Score: 695
Period size: 190 Copynumber: 2.0 Consensus size: 186
1185777 ACAAAAAAAA
1185787 TTTAGAGCATTAAAAAATATATATTTAAAAAATATGTCAAGAAAAAAATAAATGTAATGATTAAT
1 TTTAGAGCATTAAAAAATATATATTTAAAAAATATGTCAAGAAAAAAATAAATGTAATGATTAAT
1185852 TATTGC-ATATATATATATATCATATGGTAAATATATTGTCATGTTTGTAAATTAATTTTATTTT
66 TATTGCAATATATATATATATCATATGGTAAATATATTGTCATGTTTGTAAATTAATTTTATTTT
*
1185916 TAAATTTTTTTGTTAAAAGTATTTTATTTAAATTATTTTATTTTATTTATTAATGT
131 TAAATGTTTTTGTTAAAAGTATTTTATTTAAATTATTTTATTTTATTTATTAATGT
1185972 TTTAGAGCATTAAAAATATATATATTTAAAAAATATGTCAAGAAAAAAATAAATGTAATGATTAA
1 TTTAGAGCATTAAAAA-ATATATATTTAAAAAATATGTCAAGAAAAAAATAAATGTAATGATTAA
*
1186037 TTATTGCATATATATATATATATATCATATGTTAAATATATTGTCATGTTTGTAAATTAATTTTA
65 TTATTGC--A-ATATATATATATATCATATGGTAAATATATTGTCATGTTTGTAAATTAATTTTA
1186102 TTTTTAAATGTTTTTGTTAAAAGTATTTTATTTAAATTATTTTATTTTATTTATTAATGT
127 TTTTTAAATGTTTTTGTTAAAAGTATTTTATTTAAATTATTTTATTTTATTTATTAATGT
1186162 TTT
1 TTT
1186165 TACCTTTCCC
Statistics
Matches: 186, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
185 16 0.09
186 55 0.30
190 115 0.62
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (186 bp):
TTTAGAGCATTAAAAAATATATATTTAAAAAATATGTCAAGAAAAAAATAAATGTAATGATTAAT
TATTGCAATATATATATATATCATATGGTAAATATATTGTCATGTTTGTAAATTAATTTTATTTT
TAAATGTTTTTGTTAAAAGTATTTTATTTAAATTATTTTATTTTATTTATTAATGT
Found at i:1186156 original size:14 final size:14
Alignment explanation
Indices: 1186089--1186148 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
1186079 GTCATGTTTG
1186089 TAAATTAATTTTATTTT
1 TAAATT-ATTTTA--TT
*
1186106 TAAATGT-TTTTGTT
1 TAAAT-TATTTTATT
* *
1186120 AAAAGTATTTTATT
1 TAAATTATTTTATT
1186134 TAAATTATTTTATT
1 TAAATTATTTTATT
1186148 T
1 T
1186149 TATTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.03
14 24 0.69
16 4 0.11
17 5 0.14
18 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TAAATTATTTTATT
Found at i:1186240 original size:4 final size:4
Alignment explanation
Indices: 1186223--1186255 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
1186213 CCAAATATTT
*
1186223 TAAA TAAG TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1186256 TTAATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:1186526 original size:15 final size:15
Alignment explanation
Indices: 1186506--1186548 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
1186496 GTCTAAAATT
1186506 AATAAATATATAAAA
1 AATAAATATATAAAA
*
1186521 AATAAAATTTAATAAAA
1 AAT-AAATAT-ATAAAA
*
1186538 AATAATTATAT
1 AATAAATATAT
1186549 GACTAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATATATAAAA
Found at i:1187311 original size:2 final size:2
Alignment explanation
Indices: 1187306--1187339 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1187296 TTTTTTGTTT
1187306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1187340 ATTATAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1192915 original size:2 final size:2
Alignment explanation
Indices: 1192908--1192951 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1192898 TTGCCATCCT
1192908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1192950 TA
1 TA
1192952 AAACTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1193167 original size:29 final size:29
Alignment explanation
Indices: 1193102--1193187 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
1193092 AGTAAAGCAC
**
1193102 ATAAATTTAAATTGTAGGA-AAATAAATTGC
1 ATAAATTTAAATTGTA--ATAAATAAATTAA
* *
1193132 ATGAATTTAAATTATAATAAATAAATTAA
1 ATAAATTTAAATTGTAATAAATAAATTAA
*
1193161 ATAAATTTAAATTGTAATAAAAAAATT
1 ATAAATTTAAATTGTAATAAATAAATT
1193188 TTGTTAGGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 1 0.02
29 33 0.69
30 14 0.29
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (29 bp):
ATAAATTTAAATTGTAATAAATAAATTAA
Found at i:1193377 original size:20 final size:22
Alignment explanation
Indices: 1193336--1193380 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
1193326 GTTAAGTATA
1193336 AATGTTTTTCAAGTATAAAAAT
1 AATGTTTTTCAAGTATAAAAAT
1193358 AATG-TTTTCAAGTA-AAAAAT
1 AATGTTTTTCAAGTATAAAAAT
1193378 AAT
1 AAT
1193381 CCAAAGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.39
21 10 0.43
22 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (22 bp):
AATGTTTTTCAAGTATAAAAAT
Found at i:1193495 original size:13 final size:13
Alignment explanation
Indices: 1193477--1193501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1193467 ATATTGCTTA
1193477 GTATCGATACATT
1 GTATCGATACATT
1193490 GTATCGATACAT
1 GTATCGATACAT
1193502 GTTCTTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1193518 original size:32 final size:33
Alignment explanation
Indices: 1193457--1193519 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1193447 ATCCTAGAAA
1193457 GTATCGATACATATTGCTTAGTATCGATACATT
1 GTATCGATACATATTGCTTAGTATCGATACATT
* *
1193490 GTATCGATACATGTT-CTTGGTATCGATACA
1 GTATCGATACATATTGCTTAGTATCGATACA
1193520 CATTGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
GTATCGATACATATTGCTTAGTATCGATACATT
Found at i:1194666 original size:139 final size:135
Alignment explanation
Indices: 1194417--1194702 Score: 335
Period size: 139 Copynumber: 2.1 Consensus size: 135
1194407 GAGAACACTT
* *
1194417 AGCTCAAGCTATCACCTAAGTTAAAACTTAGGCTCATCAAGCCATAATGTTGCTATAAATTAACT
1 AGCTCAAGCTATCACCTAAGTTAAAACTTAGGATCATCAAGCCATAATGTTGCTATAAATTAAAT
* * * * *
1194482 AAACTAACGAGAATTAAAAGAACACATTTTTAGCTCTTGCTTGGCTACCAAAAGAGCTAGAAAAA
66 AAACTAACAAGAATTAAAAGAACAAAGTTTTAGATCTTGCTTGGCTACCAAAAAAGCTAGAAAAA
1194547 CTTTA
131 CTTTA
* * * *
1194552 AGTTCAAGCTAGTCACCTAAGTTTACAATTTAGGATCATCAAGCCTTTAA-GTTGCTCATAAATT
1 AGCTCAAGCTA-TCACCTAAG-TTAAAACTTAGGATCATCAAGCC-ATAATGTTGCT-ATAAATT
* * * *
1194616 AAATGAATTAACAAGAAATTAAAAGGAA-AGAAGTTTT-GATCTTGCTTGGCTATCAAAAAAGTT
62 AAATAAACTAACAAG-AATTAAAA-GAACA-AAGTTTTAGATCTTGCTTGGCTACCAAAAAAGCT
*
1194679 AGAAAACCTTTA
124 AGAAAAACTTTA
*
1194691 AGCTCAAACTAT
1 AGCTCAAGCTAT
1194703 GGAATTAATT
Statistics
Matches: 126, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
135 10 0.08
136 9 0.07
137 26 0.21
138 22 0.17
139 51 0.40
140 8 0.06
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (135 bp):
AGCTCAAGCTATCACCTAAGTTAAAACTTAGGATCATCAAGCCATAATGTTGCTATAAATTAAAT
AAACTAACAAGAATTAAAAGAACAAAGTTTTAGATCTTGCTTGGCTACCAAAAAAGCTAGAAAAA
CTTTA
Found at i:1198619 original size:13 final size:12
Alignment explanation
Indices: 1198601--1198645 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 12
1198591 AAATATATCA
1198601 TATCGATACATTG
1 TATCGATACA-TG
1198614 TATCGATACATG
1 TATCGATACATG
1198626 TATC-AT---TG
1 TATCGATACATG
1198634 TATCGATACATG
1 TATCGATACATG
1198646 CAGGCAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
11 2 0.07
12 8 0.29
13 10 0.36
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (12 bp):
TATCGATACATG
Found at i:1215208 original size:8 final size:8
Alignment explanation
Indices: 1215194--1215286 Score: 68
Period size: 8 Copynumber: 11.6 Consensus size: 8
1215184 TTCGCACCAA
1215194 AAAAAAACC
1 AAAAAAA-C
1215203 AAAAAAA-
1 AAAAAAAC
*
1215210 AAAAACCAAG
1 AAAAA--AAC
*
1215220 AAAAGAAC
1 AAAAAAAC
1215228 AAAAAAAC
1 AAAAAAAC
1215236 AAAAAAAC
1 AAAAAAAC
1215244 AAAAAAA-
1 AAAAAAAC
** *
1215251 ACCTAAAGC
1 A-AAAAAAC
1215260 -AAAAAAC
1 AAAAAAAC
1215267 AAAAAAA-
1 AAAAAAAC
*
1215274 AAACAAAC
1 AAAAAAAC
1215282 AAAAA
1 AAAAA
1215287 TGGGGTCTAG
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 16 0.24
8 37 0.56
9 9 0.14
10 4 0.06
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1215213 original size:16 final size:16
Alignment explanation
Indices: 1215192--1215250 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 16
1215182 CATTCGCACC
1215192 AAAAAAAAACC--AAA
1 AAAAAAAAACCAAAAA
1215206 AAAAAAAAACCAAGAAA
1 AAAAAAAAACCAA-AAA
*
1215223 AGAACAAAAAAACAAAAA
1 A-AA-AAAAAACCAAAAA
1215241 AACAAAAAAA
1 AA-AAAAAAA
1215251 ACCTAAAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
14 11 0.29
17 11 0.29
18 7 0.18
19 9 0.24
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACCAAAAA
Found at i:1215242 original size:11 final size:11
Alignment explanation
Indices: 1215191--1215286 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
1215181 TCATTCGCAC
*
1215191 CAAAAAAAAAC
1 CAAAAAAAAAA
1215202 CAAAAAAAAAA
1 CAAAAAAAAAA
1215213 -AACCAAGAAAAGAA
1 CAA--AA-AAAA-AA
1215227 CAAAAAAACAAAA
1 C-AAAAAA-AAAA
*
1215240 AAACAAAAAAAA
1 CAA-AAAAAAAA
*
1215252 CCTAAAGCAAAAAA
1 -C-AAA-AAAAAAA
1215266 CAAAAAAAAAA
1 CAAAAAAAAAA
1215277 CAAACAAAAA
1 CAAA-AAAAA
1215287 TGGGGTCTAG
Statistics
Matches: 68, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
10 2 0.03
11 20 0.29
12 16 0.24
13 14 0.21
14 14 0.21
16 2 0.03
ACGTcount: A:0.81, C:0.15, G:0.03, T:0.01
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:1215248 original size:38 final size:38
Alignment explanation
Indices: 1215191--1215286 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 38
1215181 TCATTCGCAC
**
1215191 CAAAAAAAAACCAAA-AAAAAAAAACC-AAG-AAAAGAA
1 CAAAAAAAAAAAAAACAAAAAAAAACCAAAGCAAAA-AA
1215227 CAAAAAAACAAAAAAAC-AAAAAAAACCTAAAGCAAAAAA
1 CAAAAAAA-AAAAAAACAAAAAAAAACC-AAAGCAAAAAA
*
1215266 CAAAAAAAAAACAAACAAAAA
1 CAAAAAAAAAAAAAACAAAAA
1215287 TGGGGTCTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
36 8 0.16
37 15 0.29
38 7 0.14
39 17 0.33
40 4 0.08
ACGTcount: A:0.81, C:0.15, G:0.03, T:0.01
Consensus pattern (38 bp):
CAAAAAAAAAAAAAACAAAAAAAAACCAAAGCAAAAAA
Found at i:1216567 original size:28 final size:28
Alignment explanation
Indices: 1216536--1217047 Score: 549
Period size: 28 Copynumber: 17.9 Consensus size: 28
1216526 CATTCATCTC
* *
1216536 TTCAAAGCTCACAAGCCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1216564 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1216592 TTCAAAGCCCACAAGACAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1216620 TTCAAAACCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1216648 TTCAAAGCCCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1216676 TTCAAAGCCCACAAGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * * * *
1216705 TTAAAAGACCATAAGTTAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
1216733 TTTAGAGACCACAAATTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1216761 TTCAAAACTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1216789 TTCAAAGCCCTCAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1216817 TTCAAAGCCCTCAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
1216844 CTTCAAAAGACCATAAGTCAGTGGTACCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
1216874 TTCAAAGCCCACAAGTCAGTGGCACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1216902 TTCAAAGGCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1216930 TTCAAAGCCCAGAAGTTAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* * * *
1216960 TTCAAAGCCTATAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1216988 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
*
1217020 TTCAAAGCCCACACAAGTTAGTGGCATC
1 TTCAAAG-CC-CACAAGTCAGTGGCATC
1217048 TTCTTTTTTT
Statistics
Matches: 410, Mismatches: 64, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
27 2 0.00
28 297 0.72
29 45 0.11
30 39 0.10
31 2 0.00
32 25 0.06
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1216789 original size:141 final size:140
Alignment explanation
Indices: 1216536--1217032 Score: 552
Period size: 141 Copynumber: 3.5 Consensus size: 140
1216526 CATTCATCTC
* * * * *
1216536 TTCAAAGCTCACAAGCCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGACCATAAGTCAGTGGCATCCTTTT-AAAG
* *
1216599 CCCACAAGA-CAGTGGCACCCTTTCAAAACCCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAG
65 CCCACAA-ATCAGTGGCACCCTTTCAAAA-CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
1216663 TCAGTGGTATCCT
128 TCAGTGGTATCCT
* * * *
1216676 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGACCATAAGTTAATGGCATCCTTTTAGAGA
1 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGACCATAAGTCAGTGGCATCCTTTTAAAGC
* *
1216741 CCACAAATTAGTGGCACCCTTTCAAAACTCACAAGTCAGTGGCATCCTTTCAAAGCCCTCAAGTC
66 CCACAAATCAGTGGCACCCTTTCAAAAC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
*
1216806 AGTGGCATCCT
130 AGTGGTATCCT
* * * * *
1216817 TTCAAAGCCCTCAAGTCAGTGGCATCTCTTCAAAAGACCATAAGTCAGTGGTACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGACCATAAGTCAGTGGCATCCTTTTAAAGC
* * * * * *
1216882 CCACAAGTCAGTGGCACCCCTTCAAAGGCCACAAGTCAGTGGCACCCTTTCAAAGCCCAGAAGTT
66 CCACAAATCAGTGGCACCCTTTCAAA-ACCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
*
1216947 AGTGGCATACCCT
130 AGTGG--TATCCT
* * * * * * * * *
1216960 TTCAAAGCCTATAAGTCGGTGGCA-CCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAG-AC-CATAAGTCAGTGGCATC-CTTTT-A
1217024 AAGCCCACA
62 AAGCCCACA
1217033 CAAGTTAGTG
Statistics
Matches: 300, Mismatches: 46, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
140 26 0.09
141 208 0.69
142 14 0.05
143 25 0.08
144 13 0.04
145 4 0.01
146 10 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (140 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGACCATAAGTCAGTGGCATCCTTTTAAAGC
CCACAAATCAGTGGCACCCTTTCAAAACCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
GTGGTATCCT
Found at i:1217044 original size:32 final size:33
Alignment explanation
Indices: 1216987--1217054 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
1216977 GGTGGCACCC
*
1216987 TTTCAAAGCCCACACAAGTCGGTGGCAAC-TCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAACTTCT
* *
1217019 TTTCAAAGCCCACACAAGTTAGTGGCATCTTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAACTTCT
1217052 TTT
1 TTT
1217055 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (33 bp):
TTTCAAAGCCCACACAAGTCAGTGGCAACTTCT
Found at i:1217987 original size:20 final size:20
Alignment explanation
Indices: 1217962--1218214 Score: 143
Period size: 20 Copynumber: 11.7 Consensus size: 20
1217952 TTTTACCTAG
1217962 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1217982 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1218002 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1218022 ATGTGTCGATACATTCTGTCTTTTTACCTA
1 ATGTATCGATACA-------TTTTT--C-A
1218052 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
*
1218073 ATGTATCGATACA--TGT-A
1 ATGTATCGATACATTTTTCA
*
1218090 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1218110 ATGTGTCGATACATTCTGTCTTTTTACCTA
1 ATGTATCGATACA-------TTTTT--C-A
* *
1218140 GATGTATCGATACAATCTTCA
1 -ATGTATCGATACATTTTTCA
* * *
1218161 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1218181 ATATATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1218201 ATGTATCAATACAT
1 ATGTATCGATACAT
1218215 CTAGTTCAAA
Statistics
Matches: 178, Mismatches: 30, Indels: 50
0.69 0.12 0.19
Matches are distributed among these distances:
17 14 0.08
18 2 0.01
19 1 0.01
20 113 0.63
21 2 0.01
22 2 0.01
24 8 0.04
27 8 0.04
29 2 0.01
30 2 0.01
31 24 0.13
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1218103 original size:37 final size:37
Alignment explanation
Indices: 1218053--1218123 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
1218043 TTTTACCTAG
*
1218053 ATGTATCGATACATTTTTCAATGTATCGATACATGTA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTA
*
1218090 ATGTATCGATACATTCTTCAATGTGTCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACAT
1218124 TCTGTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (37 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATGTA
Found at i:1218136 original size:88 final size:90
Alignment explanation
Indices: 1217951--1218214 Score: 451
Period size: 88 Copynumber: 2.9 Consensus size: 90
1217941 AAAAGTCACA
1217951 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATG-ATGAATGTATCGATACAT
1218016 TCTTCAATGTGTCGATACATTCTGTC
65 TCTTCAATGTGTCGATACATTCTGTC
1218042 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATG-T-AATGTATCGATACATT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGATGAATGTATCGATACATT
1218105 CTTCAATGTGTCGATACATTCTGTC
66 CTTCAATGTGTCGATACATTCTGTC
* * *
1218130 TTTTTACCTAGATGTATCGATACAATCTTCAATGTATCGATACATGTATGAATATATCGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATG-ATGAATGTATCGATACAT
* *
1218195 TCTTCAATGTATCAATACAT
65 TCTTCAATGTGTCGATACAT
1218215 CTAGTTCAAA
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
88 85 0.52
89 1 0.01
90 1 0.01
91 78 0.47
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (90 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGATGAATGTATCGATACATT
CTTCAATGTGTCGATACATTCTGTC
Found at i:1221611 original size:250 final size:248
Alignment explanation
Indices: 1221140--1221637 Score: 560
Period size: 250 Copynumber: 2.0 Consensus size: 248
1221130 TAGAGTTTCA
* * * * *
1221140 TAACTCAAGAAATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATGGGTGGCGACT
1 TAACTCAAGAAATAGGTTTCAATAGGCATCCGATCATGCCTAACCCAAAATGATCGATGGCAACT
* * * * * * * * *
1221205 TCAAAATTTTGATCATTTCGTGGTGACCGTCGAGGATCAGTTAGATGGGTGATTCATCTACTGAT
66 CCAAAATTTAGATCACTTCATGGTGACCGTCAAAGATCAGTTAGATAGGCGATTCATCTACCGAT
* * * * **
1221270 CTTTCCCTTTTTAACACATATCACTTACCATGCCATGGAAATCTCCAAATCATGAAGGATATTAA
131 CTTCCCCCTTTCAACACATATCACTTACCATACCATAAAAATCTCCAAATCATGAAGGATATTAA
* * *
1221335 GTCGGGCATGCCTCATTTGTCCCTATTGTCGGGGGTCGAGCGCACGTTGCTATAG
196 GTCGGGCATACCTCATTTGTCCCTATTATC-GGGGT-GAGCGCACGTTGCGATAG
* *
1221390 TAACTCAA-AACATGGGTTTCAATAGGCATCCGATCTTGCCTAACCCAAAATGATCGATGGCAAC
1 TAACTCAAGAA-ATAGGTTTCAATAGGCATCCGATCATGCCTAACCCAAAATGATCGATGGCAAC
* *
1221454 TCCAAAATTTCAG-TTACTTCATGGTGACTGTCAAAGATC-GATTAGATAGGCGATTCATCTACC
65 TCCAAAATTT-AGATCACTTCATGGTGACCGTCAAAGATCAG-TTAGATAGGCGATTCATCTACC
* * * * *
1221517 GATCTTCCCCCTTTCAATCAACATATTC-CTTATCATATCATAAAAATC-CCCAATCGTGAGGGA
128 GATCTTCCCCCTTTCAA-C-ACATA-TCACTTACCATACCATAAAAATCTCCAAATCATGAAGGA
* *
1221580 TATTAAGTCGGGC-TCACCTTATTTG-CCCTATTATCGGGGTGAGTGCACGTTGCGATAG
190 TATTAAGTCGGGCAT-ACCTCATTTGTCCCTATTATCGGGGTGAGCGCACGTTGCGATAG
1221638 CTTTGTGACT
Statistics
Matches: 207, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
248 16 0.08
249 8 0.04
250 126 0.61
251 35 0.17
252 20 0.10
253 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (248 bp):
TAACTCAAGAAATAGGTTTCAATAGGCATCCGATCATGCCTAACCCAAAATGATCGATGGCAACT
CCAAAATTTAGATCACTTCATGGTGACCGTCAAAGATCAGTTAGATAGGCGATTCATCTACCGAT
CTTCCCCCTTTCAACACATATCACTTACCATACCATAAAAATCTCCAAATCATGAAGGATATTAA
GTCGGGCATACCTCATTTGTCCCTATTATCGGGGTGAGCGCACGTTGCGATAG
Found at i:1225518 original size:8 final size:8
Alignment explanation
Indices: 1225507--1225550 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
1225497 GAAAAAGTAA
1225507 AAAAAAAC
1 AAAAAAAC
1225515 -AAAAAAC
1 AAAAAAAC
1225522 AAAAAAAAC
1 -AAAAAAAC
*
1225531 AACAAAAC
1 AAAAAAAC
*
1225539 ATAAAAAC
1 AAAAAAAC
1225547 AAAA
1 AAAA
1225551 TGCAAAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 7 0.23
8 16 0.53
9 7 0.23
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1225518 original size:17 final size:15
Alignment explanation
Indices: 1225505--1225575 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 15
1225495 ATGAAAAAGT
1225505 AAAAAAAAACAAAAA
1 AAAAAAAAACAAAAA
1225520 ACAAAAAAAACAACAAA
1 A-AAAAAAAACAA-AAA
* * *
1225537 ACATAAAAACAAAATGC
1 AAAAAAAAACAAAA--A
*
1225554 AAAAAACAACAAAATA
1 AAAAAAAAACAAAA-A
1225570 AAAAAA
1 AAAAAA
1225576 TGAAAAAAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 3 0.07
16 26 0.59
17 15 0.34
ACGTcount: A:0.82, C:0.13, G:0.01, T:0.04
Consensus pattern (15 bp):
AAAAAAAAACAAAAA
Found at i:1225544 original size:19 final size:16
Alignment explanation
Indices: 1225506--1225567 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
1225496 TGAAAAAGTA
1225506 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
1225522 AAAAAAAACAACAAAAC
1 AAAAAAAACAA-AAAAC
* **
1225539 -ATAAAAACAAAATGC
1 AAAAAAAACAAAAAAC
1225554 AAAAAACAACAAAA
1 AAAAAA-AACAAAA
1225568 TAAAAAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 3 0.08
16 24 0.62
17 12 0.31
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.03
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:1225567 original size:8 final size:7
Alignment explanation
Indices: 1225508--1225574 Score: 62
Period size: 7 Copynumber: 8.9 Consensus size: 7
1225498 AAAAAGTAAA
1225508 AAAAAAC
1 AAAAAAC
1225515 AAAAAAC
1 AAAAAAC
1225522 AAAAAAAAC
1 --AAAAAAC
1225531 AACAAAAC
1 AA-AAAAC
1225539 ATAAAAAC
1 A-AAAAAC
**
1225547 AAAATGC
1 AAAAAAC
1225554 AAAAAAC
1 AAAAAAC
*
1225561 AACAAAAT
1 AA-AAAAC
1225569 AAAAAA
1 AAAAAA
1225575 ATGAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
7 24 0.48
8 18 0.36
9 8 0.16
ACGTcount: A:0.81, C:0.13, G:0.01, T:0.04
Consensus pattern (7 bp):
AAAAAAC
Found at i:1226957 original size:54 final size:54
Alignment explanation
Indices: 1226859--1226964 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
1226849 TTTCTTCCAG
* * *
1226859 GTCCACAACTTCGCTGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAA
1 GTCCACAACTCCGCTGCACCATTTTAAGTCCACAACTCCATGGCACCTTTTTAA
** *
1226913 GTCCACAACTCCG-TGGCACCATTTTAAGTCCACAACTTTATGGCACTTTTTT
1 GTCCACAACTCCGCT-GCACCATTTTAAGTCCACAACTCCATGGCACCTTTTT
1226965 CTTTTCAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (54 bp):
GTCCACAACTCCGCTGCACCATTTTAAGTCCACAACTCCATGGCACCTTTTTAA
Found at i:1226964 original size:27 final size:27
Alignment explanation
Indices: 1226859--1226949 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
1226849 TTTCTTCCAG
* *
1226859 GTCCACAACTTCGCT-GCACCCTTTTAA
1 GTCCACAACTCCG-TGGCACCTTTTTAA
1226886 GTCCACAACTCCGTGGCACCTTTTTAA
1 GTCCACAACTCCGTGGCACCTTTTTAA
*
1226913 GTCCACAACTCCGTGGCACCATTTTAA
1 GTCCACAACTCCGTGGCACCTTTTTAA
1226940 GTCCACAACT
1 GTCCACAACT
1226950 TTATGGCACT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.02
27 59 0.98
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.27
Consensus pattern (27 bp):
GTCCACAACTCCGTGGCACCTTTTTAA
Found at i:1227088 original size:34 final size:32
Alignment explanation
Indices: 1226979--1228125 Score: 339
Period size: 34 Copynumber: 35.7 Consensus size: 32
1226969 TCAAAGCCCA
* * *
1226979 CACAACTCTGTGACACCTTTTT-CTTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* * * *
1227013 CACAACTCCATAGCATCTTTTTTCCTTTTAAGTT
1 CACAACTCCGTGGCA-CCTTTTTCCTTTTAA-TC
1227047 CACAACTCCGTGGCACCCTTTTTCCTTTTAATC
1 CACAACTCCGTGGCA-CCTTTTTCCTTTTAATC
* *
1227080 CTATAACTCTGTGGCA-C-----CCTTTTAAGTC
1 C-ACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
** * *
1227108 CACAACTATGTGGCACCTTTTT-CTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTT-TAA-TC
** *
1227141 CACAACTCCGTGGCACCTTTTTTTTTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* *
1227176 CATAACTCTGTGGCACCTTTTTCCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTT-CCTTTTAA-TC
* * *
1227210 CACAACTCCATGGTA-CATTTTCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
** *
1227242 CACAACTCTATGGCACCCTTTTCCCTTTTAATC
1 CACAACTCCGTGGCA-CCTTTTTCCTTTTAATC
* * *
1227275 CACAACTCCGTGGCACATTTTTTTCTTTTAAGCC
1 CACAACTCCGTGGCAC-CTTTTTCCTTTTAA-TC
* *
1227309 CATAACTTCGTGGCA-C----T-CTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
* *
1227336 CATAACTCCGTGGCA-CTTTTT-CTTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* * *
1227369 CATAACTCTGTGGCACCTTTTT-CTTTTCAAAGAC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* ** * *
1227403 CATAACTTTGTGGCACATTTTT-CTTTTCGAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* * * * * *
1227437 CACAATTTCGTGGTACCCTTTTCTTTTTTAAGTT
1 CACAACTCCGTGGCACCTTTTTC-CTTTTAA-TC
* *
1227471 TACAACTCCGTGGCA-CATTTTCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
** *
1227503 CACAACTCCGTAACACCCTTTTCCCTTTTAAGTC
1 CACAACTCCGTGGCA-CCTTTTTCCTTTTAA-TC
* *
1227537 CATAACTCTGTGGCA-C---TT--TTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
*
1227564 CACAA-TCCTGTAGCA-C---TT--TTTTAAGTC
1 CACAACTCC-GTGGCACCTTTTTCCTTTTAA-TC
** ** *
1227591 CACAACTCTATGGCA-CTTTTTTATTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* *
1227625 CACAACTCCATGGCA-C-----CCTATTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
* * * *
1227652 CACAACTTCGTGACACC-TTTTCTTTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* *
1227686 CACAACTCCATGGCACCTTTTT-CTTTTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTTTT--AA-TC
* *
1227720 CATAACTCCGTGGCACCATTTTCCATTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCC-TTTTAA-TC
* * *
1227754 CACAACTCCGTGACACCCTTTTTTCTTTTAAGCC
1 CACAACTCCGTGGCA-CCTTTTTCCTTTTAA-TC
* ****
1227788 CACAACTCCGTGGCACTTCTTTTCCCCCAAAAGTC
1 CACAACTCCGTGGCAC--CTTTTTCCTTTTAA-TC
* *
1227823 CACAACTTCATGGCA-C-----CCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
** * * * *
1227850 CACAACTCTATGACACATTTTT-CTTCTCAAAGCC
1 CACAACTCCGTGGCACCTTTTTCCTT-T-TAA-TC
* * *
1227884 CACAACTCTGTGGTATCCTTTCTCCTTTTAAATC
1 CACAACTCCGTGGCA-CCTTTTTCCTTTT-AATC
1227918 CACAACTCCGTGGCA--TTTTT--TTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
* *
1227947 TACAACTCCATGGCA-C-----CCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
* * *
1227974 CACAACTCTGTGGAACC-TTTTCCTTTTAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAATC
** *
1228005 CACAACTCTATGGCACCCTCTTTCCTTTTAAGTC
1 CACAACTCCGTGGCA-CCTTTTTCCTTTTAA-TC
* *
1228039 CACAACTCCATGGCATC-TTTTCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTTCCTTTTAA-TC
* * *
1228071 CATAACTCTGTGACA-CTTTTTCCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTT-CCTTTTAA-TC
* *
1228104 CACAACTCTGTAGCACCTTTTT
1 CACAACTCCGTGGCACCTTTTT
1228126 TTTTTCAAAG
Statistics
Matches: 873, Mismatches: 162, Indels: 156
0.73 0.14 0.13
Matches are distributed among these distances:
26 2 0.00
27 139 0.16
28 11 0.01
29 23 0.03
30 2 0.00
31 26 0.03
32 101 0.12
33 117 0.13
34 358 0.41
35 74 0.08
36 20 0.02
ACGTcount: A:0.22, C:0.30, G:0.10, T:0.37
Consensus pattern (32 bp):
CACAACTCCGTGGCACCTTTTTCCTTTTAATC
Found at i:1227114 original size:27 final size:27
Alignment explanation
Indices: 1227070--1227129 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
1227060 CACCCTTTTT
* *
1227070 CCTTTTAATCCTATAACTCTGTGGCAC
1 CCTTTTAATCCTACAACTATGTGGCAC
1227097 CCTTTTAAGTCC-ACAACTATGTGGCAC
1 CCTTTTAA-TCCTACAACTATGTGGCAC
*
1227124 CTTTTT
1 CCTTTT
1227130 CTTTCAAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (27 bp):
CCTTTTAATCCTACAACTATGTGGCAC
Found at i:1227183 original size:129 final size:130
Alignment explanation
Indices: 1226979--1227510 Score: 376
Period size: 128 Copynumber: 4.1 Consensus size: 130
1226969 TCAAAGCCCA
* * * * *
1226979 CACAACTCTGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCATAGCATCTTTTTTCCTTTTAA
1 CACAACTCTGTGGCACCTTTTTC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTTT-TTTTTAA
** * * **
1227044 GTTCACAACTCCGTGGCACCCTTTTT-CCTTTTAA-TCCTATAACTCTGTGG-CA-CCCTTTTAA
64 GCCCATAACTCCGTGGCACCCTTTTTCCCTTTTAAGTCC-ACAACTCCATGGACATCCCTTTTAA
1227105 GTC
128 GTC
*
1227108 CACAACTATGTGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTTCAAA
1 CACAACTCTGTGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTT--AA
* *
1227173 GCCCATAACTCTGTGGCA-CCTTTTTCCCTTTTAAGTCCACAACTCCATGGTACATTTTCCTTTT
64 GCCCATAACTCCGTGGCACCCTTTTTCCCTTTTAAGTCCACAACTCCATGG-ACA--TCCCTTTT
1227237 AAGTC
126 AAGTC
* * * * *
1227242 CACAACTCTATGGCACCCTTTTCCCTTT-TAA-TCCACAACTCCGTGGCACATTTTTTTCTTTTA
1 CACAACTCTGTGGCA-CCTTTT-TCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTT-TTTTA
* * * * **
1227305 AGCCCATAACTTCGTGGCA--C----T--CTTTTAAGTCCATAACTCCGTGGCACTTTTTCTTTT
63 AGCCCATAACTCCGTGGCACCCTTTTTCCCTTTTAAGTCCACAACTCCATGG-AC-ATCCCTTTT
*
1227362 CAAAGCC
126 --AAGTC
* * * ** * **
1227369 CATAACTCTGTGGCACCTTTTTCTTTTCAAAGACCATAACTTTGTGGCACATTTTTCTTTTCGAA
1 CACAACTCTGTGGCACCTTTTTC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTT-TTTTTTAA
* * * * ** ** * *
1227434 GCCCACAATTTCGTGGTACCC-TTTTCTTTTTTAAGTTTACAACTCCGTGGCACATTTTCCTTTT
64 GCCCATAACTCCGTGGCACCCTTTTTCCCTTTTAAGTCCACAACTCCATGG-ACA--TCCCTTTT
1227498 AAGTC
126 AAGTC
1227503 CACAACTC
1 CACAACTC
1227511 CGTAACACCC
Statistics
Matches: 326, Mismatches: 49, Indels: 51
0.77 0.12 0.12
Matches are distributed among these distances:
125 8 0.02
126 32 0.10
127 23 0.07
128 77 0.24
129 56 0.17
130 4 0.01
131 2 0.01
132 1 0.00
133 19 0.06
134 59 0.18
135 34 0.10
136 11 0.03
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (130 bp):
CACAACTCTGTGGCACCTTTTTCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTTAAGC
CCATAACTCCGTGGCACCCTTTTTCCCTTTTAAGTCCACAACTCCATGGACATCCCTTTTAAGTC
Found at i:1227261 original size:27 final size:29
Alignment explanation
Indices: 1227197--1227263 Score: 75
Period size: 32 Copynumber: 2.3 Consensus size: 29
1227187 GGCACCTTTT
1227197 TCCCTTTTAAGTCCACAACTCCATGGTACA
1 TCCCTTTTAAGTCCACAACTCCATGG-ACA
* *
1227227 TTTTCCTTTTAAGTCCACAACTCTATGG-CA
1 --TCCCTTTTAAGTCCACAACTCCATGGACA
1227257 -CCCTTTT
1 TCCCTTTT
1227264 CCCTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.19
30 2 0.06
32 24 0.75
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.37
Consensus pattern (29 bp):
TCCCTTTTAAGTCCACAACTCCATGGACA
Found at i:1227332 original size:228 final size:227
Alignment explanation
Indices: 1226953--1227775 Score: 713
Period size: 228 Copynumber: 3.6 Consensus size: 227
1226943 CACAACTTTA
* ** ** *
1226953 TGGCACTTTTTTCTTTTCAAAGCCCACACAACTCTGTGACACC-TTTT-TCTTTTCAAAGCCCAC
1 TGGCACCTTTTTCTTTTC-AAG-CC-CACAACTCCATGGTACCATTTTCTCTTTT--AAGTCCAC
* * * *
1227016 AACTCCATAGCATCTTTTTTCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTTCCTTTTAATCC
61 AACTCCATGGCA-C-ATTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCC
* * *
1227081 TATAACTCTGTGGCACCCTTTTAAGTCCACAACTATGTGGCACCTTTTTCTTTCAAAGCCCACAA
124 CATAACTCTGTGGCACTCTTTTAAGTCCACAACTCTGTGGCA-CTTTTTCTTTCAAAGCCCACAA
* *
1227146 CTCCGTGGCACCTTTTTTTTTTTCAAAGCCCATAACTCTG
188 CTCTGTGGCACCTTTTTTATTTTCAAAGCCCATAACTCTG
*
1227186 TGGCACCTTTTTCCCTTTT-AAGTCCACAACTCCATGGTA-CATTTTC-CTTTTAAGTCCACAAC
1 TGGCACCTTTTT--CTTTTCAAGCCCACAACTCCATGGTACCATTTTCTCTTTTAAGTCCACAAC
* * ** *
1227248 TCTATGGCACCCTTTTCCCTTTTAA-TCCACAACTCCGTGGCACATTTTTTTCTTTTAAGCCCAT
64 TCCATGGCA-CATTTT-CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCAT
* * *
1227312 AACT-TCGTGGCACTCTTTTAAGTCCATAACTCCGTGGCACTTTTTCTTTTCAAAGCCCATAACT
127 AACTCT-GTGGCACTCTTTTAAGTCCACAACTCTGTGGCACTTTTTC-TTTCAAAGCCCACAACT
* * *
1227376 CTGTGGCACC-TTTTTCTTTTCAAAGACCATAACTTTG
190 CTGTGGCACCTTTTTTATTTTCAAAGCCCATAACTCTG
* * * * * * **
1227413 TGGCACATTTTTCTTTTCGAAGCCCACAATTTCGTGGTACCCTTTTCTTTTTTAAGTTTACAACT
1 TGGCACCTTTTTCTTTTC-AAGCCCACAACTCCATGGTACCATTTTCTCTTTTAAGTCCACAACT
* ** * *
1227478 CCGTGGCACATTTTCCTTTTAAGTCCACAACTCCGTAACACCCTTTTCCCTTTTAAGTCCATAAC
65 CCATGGCACATTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCATAAC
* * * *
1227543 TCTGTGGCACTTTTTTAAGTCCACAA-TCCTGTAGCAC--TTT-TTT--AAGTCCACAACTCTAT
130 TCTGTGGCACTCTTTTAAGTCCACAACT-CTGTGGCACTTTTTCTTTCAAAGCCCACAACTCTGT
* **
1227602 GGCA-CTTTTTTATTTTCAAAGCCCACAACTCCA
194 GGCACCTTTTTTATTTTCAAAGCCCATAACTCTG
* * * * ** *
1227635 TGGCACC-----CTATT-AAGTCCACAACTTCGTGACACC-TTTTCT-TTTTCAAAGCCCACAAC
1 TGGCACCTTTTTCTTTTCAAGCCCACAACTCCATGGTACCATTTTCTCTTTT--AAGTCCACAAC
* * * * * *
1227692 TCCATGGCACCTTTTTCTTTTCAAAGCCCATAACTCCGTGGCA-CCATTTTCCATTTTAAGTCCA
64 TCCATGGCACATTTTCCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTTCC-TTTTAAGCCCA
* * * *
1227756 CAACTCCGTGACACCCTTTT
126 TAACTCTGTGGCACTCTTTT
1227776 TTCTTTTAAG
Statistics
Matches: 489, Mismatches: 81, Indels: 56
0.78 0.13 0.09
Matches are distributed among these distances:
213 4 0.01
214 6 0.01
215 44 0.09
216 7 0.01
217 46 0.09
221 1 0.00
222 44 0.09
224 3 0.01
225 5 0.01
226 3 0.01
227 68 0.14
228 170 0.35
229 47 0.10
230 1 0.00
231 20 0.04
232 1 0.00
233 14 0.03
235 5 0.01
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (227 bp):
TGGCACCTTTTTCTTTTCAAGCCCACAACTCCATGGTACCATTTTCTCTTTTAAGTCCACAACTC
CATGGCACATTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCATAACT
CTGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACTTTTTCTTTCAAAGCCCACAACTCTGTGG
CACCTTTTTTATTTTCAAAGCCCATAACTCTG
Found at i:1227338 original size:27 final size:27
Alignment explanation
Indices: 1227298--1227389 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 27
1227288 CACATTTTTT
*
1227298 TCTTTTAAGCCCATAACTTCGTGGCAC
1 TCTTTTAAGCCCATAACTCCGTGGCAC
*
1227325 TCTTTTAAGTCCATAACTCCGTGGCAC
1 TCTTTTAAGCCCATAACTCCGTGGCAC
*
1227352 TTTTTCTTTTCAAAGCCCATAACTCTGTGGCAC
1 ----TCTTTT--AAGCCCATAACTCCGTGGCAC
1227385 -CTTTT
1 TCTTTT
1227390 TCTTTTCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
27 25 0.45
28 5 0.09
31 6 0.11
33 19 0.35
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (27 bp):
TCTTTTAAGCCCATAACTCCGTGGCAC
Found at i:1227376 original size:94 final size:95
Alignment explanation
Indices: 1227140--1227418 Score: 255
Period size: 94 Copynumber: 2.9 Consensus size: 95
1227130 CTTTCAAAGC
* **
1227140 CCACAACTCCGTGGCACCTTTTTTTTTTTCAAAGCCCATAACTCTGTGGCACCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACC-TTTTTCTTTTCAAAGCCCATAACTCTGTGGCA-CTTTTTTTCTTTT
* * * * *
1227205 AAGTCCACAACTCCATGGTACATTTTCCTTTTAAGT
64 AAGACCATAACTTCGTGG--CA--CTCCTTTTAAGT
** * * * *
1227241 CCACAACTCTATGGCACCCTTTTCCCTTTT--AA-TCCACAACTCCGTGGCACATTTTTTTCTTT
1 CCACAACTCCGTGGCA-CCTTTT-TCTTTTCAAAGCCCATAACTCTGTGGCAC-TTTTTTTCTTT
*
1227303 TAAGCCCATAACTTCGTGGCACT-CTTTTAAGT
63 TAAGACCATAACTTCGTGGCACTCCTTTTAAGT
* *
1227335 CCATAACTCCGTGGCA-CTTTTTCTTTTCAAAGCCCATAACTCTGTGGCAC-CTTTTTCTTTTCA
1 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCTGTGGCACTTTTTTTCTTTT--
*
1227398 AAGACCATAACTTTGTGGCAC
64 AAGACCATAACTTCGTGGCAC
1227419 ATTTTTCTTT
Statistics
Matches: 146, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
91 5 0.03
92 15 0.10
93 2 0.01
94 56 0.38
95 1 0.01
97 2 0.01
98 1 0.01
99 38 0.26
100 2 0.01
101 18 0.12
102 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (95 bp):
CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCTGTGGCACTTTTTTTCTTTTAA
GACCATAACTTCGTGGCACTCCTTTTAAGT
Found at i:1227562 original size:27 final size:27
Alignment explanation
Indices: 1227528--1227613 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
1227518 CCCTTTTCCC
*
1227528 TTTTAAGTCCATAACTCTGTGGCACTT
1 TTTTAAGTCCACAACTCTGTGGCACTT
*
1227555 TTTTAAGTCCACAA-TCCTGTAGCACTT
1 TTTTAAGTCCACAACT-CTGTGGCACTT
*
1227582 TTTTAAGTCCACAACTCTATGGCACTT
1 TTTTAAGTCCACAACTCTGTGGCACTT
1227609 TTTTA
1 TTTTA
1227614 TTTTCAAAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCACTT
Found at i:1227628 original size:61 final size:61
Alignment explanation
Indices: 1227584--1227702 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
1227574 TAGCACTTTT
* *
1227584 TTAAGTCCACAAC-TCTATGGCA-CTTTTTTATTTTCAAAGCCCACAACTCCATGGCACCCTA
1 TTAAGTCCACAACTTC-ATGACACCTTTTCT-TTTTCAAAGCCCACAACTCCATGGCACCCTA
*
1227645 TTAAGTCCACAACTTCGTGACACCTTTTCTTTTTCAAAGCCCACAACTCCATGGCACC
1 TTAAGTCCACAACTTCATGACACCTTTTCTTTTTCAAAGCCCACAACTCCATGGCACC
1227703 TTTTTCTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 45 0.85
62 8 0.15
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (61 bp):
TTAAGTCCACAACTTCATGACACCTTTTCTTTTTCAAAGCCCACAACTCCATGGCACCCTA
Found at i:1227871 original size:27 final size:27
Alignment explanation
Indices: 1227818--1227871 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1227808 TTTCCCCCAA
* *
1227818 AAGTCCACAACTTCATGGCACCCTTTT
1 AAGTCCACAACTTCATGACACACTTTT
*
1227845 AAGTCCACAAC-TCTATGACACATTTTT
1 AAGTCCACAACTTC-ATGACACACTTTT
1227872 CTTCTCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (27 bp):
AAGTCCACAACTTCATGACACACTTTT
Found at i:1227891 original size:130 final size:124
Alignment explanation
Indices: 1227753--1227982 Score: 289
Period size: 130 Copynumber: 1.8 Consensus size: 124
1227743 CATTTTAAGT
* * *
1227753 CCACAACTCCGTGACACCCTTTTTTCTTTTAAGCCCACAACTCCGTGGCACTTCTTTTCCCCCAA
1 CCACAACTCCGTGACACCCTTTCTCCTTTTAAACCCACAACTCCGTGGCA-TT-TTTT----CAA
*
1227818 AAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAACTCTATGACACATTTTTCTTCTCAAAGC
60 AAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCTATGACACATTTTTCTTCTCAAAGC
* ** * * *** *
1227883 CCACAACTCTGTGGTATCCTTTCTCCTTTTAAATCCACAACTCCGTGGCATTTTTTTTTAAGTCT
1 CCACAACTCCGTGACACCCTTTCTCCTTTTAAACCCACAACTCCGTGGCATTTTTTCAAAAGTCC
1227948 ACAACTCCATGGCACCCTTTTAAGTCCACAACTCT
66 ACAACTCCATGGCACCCTTTTAAGTCCACAACTCT
1227983 GTGGAACCTT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
124 39 0.45
128 4 0.05
129 2 0.02
130 42 0.48
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (124 bp):
CCACAACTCCGTGACACCCTTTCTCCTTTTAAACCCACAACTCCGTGGCATTTTTTCAAAAGTCC
ACAACTCCATGGCACCCTTTTAAGTCCACAACTCTATGACACATTTTTCTTCTCAAAGC
Found at i:1228124 original size:65 final size:66
Alignment explanation
Indices: 1227962--1228124 Score: 215
Period size: 65 Copynumber: 2.5 Consensus size: 66
1227952 CTCCATGGCA
* *
1227962 CCCTTTTAAGTCCACAACTCTGTGGAACCTTTTCCTTTTAGTCCACAACTCTATGGCACCCTCTT
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAGTCCACAACTCTATGGCACACTCTT
1228027 T
66 T
** * * * *
1228028 -CCTTTTAAGTCCACAACTCCATGGCATCTTTTCCTTTTAAGTCCATAACTCTGT-G-ACACTTT
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTT-AGTCCACAACTCTATGGCACACTCT
1228090 TT
65 TT
*
1228092 CCCTTTTAAGTCCACAACTCTGTAGCACCTTTT
1 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
1228125 TTTTTTCAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 7 0.08
65 63 0.76
66 13 0.16
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (66 bp):
CCCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAGTCCACAACTCTATGGCACACTCTT
T
Found at i:1228247 original size:33 final size:33
Alignment explanation
Indices: 1228164--1228251 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
1228154 CTTTTAAGTC
* * * *
1228164 CACAACTCCGTGGC-ACCCTTTTCTAAAGCCTA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
* * *
1228196 CACAAGTCGATAGTAACCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
*
1228229 CACAAGTTGGTGGCAACCCTTCT
1 CACAAGTCGGTGGCAACCCTTCT
1228252 AAGCCTAACG
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
32 9 0.20
33 35 0.80
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
Found at i:1228368 original size:43 final size:43
Alignment explanation
Indices: 1228302--1228580 Score: 218
Period size: 43 Copynumber: 6.1 Consensus size: 43
1228292 TTTTTTTTTC
* * *
1228302 TTAAATCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * *
1228345 TTAATTCCAATATCACTGGCCTTGAATCAGTATATTGGCATCTTTACCATCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---C---A-C--CT
* * *
1228397 TTAAG-CTCAATATTGCTGGCCTTGAATCAGCACATTGGCGCCT
1 TTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * *
1228440 TTAGGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT---G-----G-CACCT
* * *
1228492 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * *
1228535 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATAGGCACCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
1228578 TTA
1 TTA
1228581 CCATTTTTAA
Statistics
Matches: 189, Mismatches: 27, Indels: 40
0.74 0.11 0.16
Matches are distributed among these distances:
43 111 0.59
44 2 0.01
45 1 0.01
46 2 0.01
49 3 0.02
50 1 0.01
51 2 0.01
52 67 0.35
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (43 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
Found at i:1228421 original size:52 final size:51
Alignment explanation
Indices: 1228343--1228971 Score: 346
Period size: 52 Copynumber: 12.6 Consensus size: 51
1228333 ATATTGGCAC
* * * *
1228343 CTTTAATTCCAATATCACTGGCCTTGAATCAGTATATTGGCATCTTTACCAT
1 CTTTAAGT-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * * **
1228395 CTTTAAGCTCAATATTGCTGGCCTTGAATCAGCACATTGGCGCCTTTA-GGT
1 CTTTAAG-TCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * **
1228446 C-------CAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * *
1228490 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG---C---A-C--
1 CTTTAAGT-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* *
1228533 CTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATAGGCACCTTTACCAT
1 CTTTAAGTC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * * * * * *
1228585 TTTTAAGCCCGATGTTGCTGGCCTTGAATCAACACATTGGCACCTTTACCAT
1 CTTTAAG-TCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
** * * * *
1228637 CTTTAAACCTAACATCGCTAGCCTTGAATCAGCACATTGGCACATTTACCAT
1 CTTTAAGTC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
** ** * * * *
1228689 CTTTAAACCCAACGTCACTGGCCTTGAATAAG-A-A----CA--TTGA-CAC
1 CTTT-AAGTCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * * * *
1228732 CTTTAAGTCCAATATCACTGCCCTTGAATTAGCATATTGGCACCTTTAACAC
1 CTTTAAGT-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
** ** * * * *
1228784 CTTTAAGTCTAATATCGCTAACCTTGAATCAATATATTAGTATCTTTGTCC-T
1 CTTTAAGTC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACCAT
* * * ***
1228836 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-TTTT
1 CTTTAAGT-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * *
1228887 C-TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTAACAT
1 CTTTAAGT-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
* * *
1228938 -TCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCA
1 CT-TTAAG-TCAATATCGCTGGCCTTGAATCAGCA
1228972 CATTAGCATT
Statistics
Matches: 449, Mismatches: 87, Indels: 82
0.73 0.14 0.13
Matches are distributed among these distances:
42 3 0.01
43 95 0.21
44 6 0.01
45 2 0.00
46 3 0.01
49 4 0.01
50 44 0.10
51 12 0.03
52 272 0.61
53 8 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCAT
Found at i:1228434 original size:95 final size:95
Alignment explanation
Indices: 1228309--1228934 Score: 499
Period size: 95 Copynumber: 6.4 Consensus size: 95
1228299 TTCTTAAATC
* * * * *
1228309 CAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTAATTCCAATATCACTGGCCTTGAATCA
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
* *
1228374 GTATATTGGCATCTTTACCATCTTTAAGCT
66 GCATATTGGCACCTTTACCATCTTTAAGCT
* * * *
1228404 CAATATTGCTGGCCTTGAATCAGCACATTGGCGCCTTTAGGTCCAATATCGTTGGCCTTGAATCA
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
* **
1228469 GCATATTGGCGCCTTTGTCATCTTTAAG-T
66 GCATATTGGCACCTTTACCATCTTTAAGCT
* * * *
1228498 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTAGCCTTGAATC
1 -CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
* * *
1228563 AGCATATAGGCACCTTTACCATTTTTAAGCC
65 AGCATATTGGCACCTTTACCATCTTTAAGCT
* * * * * * *
1228594 CGATGTTGCTGGCCTTGAATCAACACATTGGCACCTTTACCATCTTTAAACCTAACATCGCTAGC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA--A---GT---CC-AATATCGCTGGC
* * * *
1228659 CTTGAATCAGCACATTGGCACATTTACCATCTTTAAACC
57 CTTGAATCAGCATATTGGCACCTTTACCATCTTTAAGCT
** * * * * * * *
1228698 CAACGTCACTGGCCTTGAATAAGAACATTGACACCTTTAAGTCCAATATCACTGCCCTTGAATTA
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
* *
1228763 GCATATTGGCACCTTTAACACCTTTAAG-T
66 GCATATTGGCACCTTTACCATCTTTAAGCT
** * * * * *
1228792 CTAATATCGCTAACCTTGAATCAATATATTAGTATCTTTGTC-CTCTTTAAGTCCAATGTCGCTA
1 C-AATATCGCTGGCCTTGAATC--------AGCA-CATTGGCAC-CTTTAAGTCCAATATCGCTG
* ***
1228856 GCCTTGAATCAGCACATTGGCACCTTT-TTTTC-TTAAG-T
55 GCCTTGAATCAGCATATTGGCACCTTTACCATCTTTAAGCT
* * *
1228894 CCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTAA
1 -CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAA
1228935 CATTCCTAAG
Statistics
Matches: 424, Mismatches: 83, Indels: 50
0.76 0.15 0.09
Matches are distributed among these distances:
93 10 0.02
94 5 0.01
95 249 0.59
96 2 0.00
97 1 0.00
99 1 0.00
100 1 0.00
102 26 0.06
103 7 0.02
104 122 0.29
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (95 bp):
CAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
GCATATTGGCACCTTTACCATCTTTAAGCT
Found at i:1228537 original size:147 final size:148
Alignment explanation
Indices: 1228343--1228975 Score: 486
Period size: 147 Copynumber: 4.3 Consensus size: 148
1228333 ATATTGGCAC
* * * * * *
1228343 CTTTAATTCCAATATCACTGGCCTTGAATCAGTATATTGGCATCTTTACCATCTTTAAGCTCAAT
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTAAGCTCAAT
* * * * *
1228408 ATTGCTGGCCTTGAATCAGCACATTGGCGCC-TTTAGGTCCAATATCGTTGGCCTTGAATCAGCA
66 ATCGCTAGCCTTGAATCAGCACATTGGCACCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
* **
1228472 TATTGGCGCCTTTGTCAT
131 TATTGGCACCTTTAACAT
* *
1228490 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTA--A---GT---CT-AAT
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTAAGCTCAAT
* * * * * *
1228546 ATCGCTAGCCTTGAATCAGCATATAGGCACCTTTACCATTTTTAAGCCCGATGTTGCTGGCCTTG
66 ATCGCTAGCCTTGAATCAGCACATTGG---C---ACC--TTTTAAGTCCAATATCGCTGGCCTTG
* * *
1228611 AATCAACACATTGGCACCTTTACCAT
123 AATCAGCATATTGGCACCTTTAACAT
* * * * *
1228637 CTTTAA-ACCTAACATCGCTAGCCTTGAATCAGCACATTGGCACATTTACCATCTTTAAACCCAA
1 CTTTAAGTCC-AATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTAAGCTCAA
** * * * * * * * *
1228701 CGTCACTGGCCTTGAATAAGAACATTGACACC-TTTAAGTCCAATATCACTGCCCTTGAATTAGC
65 TATCGCTAGCCTTGAATCAGCACATTGGCACCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
*
1228765 ATATTGGCACCTTTAACAC
130 ATATTGGCACCTTTAACAT
* * ** * * * * *
1228784 CTTTAAGTCTAATATCGCTAACCTTGAATCAATATATTAGTATCTTTGTCC-TCTTTAAG-TCCA
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTT-ACCATCTTTAAGCT-CA
* *
1228847 ATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTTTTTCTTAAGTCCAATATCGCTAGCCTTG
64 ATATCGCTAGCCTTGAATCAGCACATTGGCACC-----TT-TTAAGTCCAATATCGCTGGCCTTG
*
1228912 AATCAGCATATTGGCATCTTTAACAT
123 AATCAGCATATTGGCACCTTTAACAT
* * * *
1228938 -TCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATT
1 CT-TTAAGTCCAATATCGCTAGCCTTGAATCAGCACATT
1228976 AGCATTCTTC
Statistics
Matches: 371, Mismatches: 85, Indels: 53
0.73 0.17 0.10
Matches are distributed among these distances:
138 26 0.07
139 2 0.01
141 1 0.00
142 1 0.00
144 2 0.01
145 1 0.00
146 2 0.01
147 232 0.63
148 3 0.01
149 1 0.00
150 3 0.01
152 1 0.00
153 3 0.01
154 71 0.19
155 1 0.00
156 21 0.06
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (148 bp):
CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTAAGCTCAAT
ATCGCTAGCCTTGAATCAGCACATTGGCACCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTTTAACAT
Found at i:1228931 original size:102 final size:103
Alignment explanation
Indices: 1228732--1228975 Score: 260
Period size: 102 Copynumber: 2.4 Consensus size: 103
1228722 ACATTGACAC
* * * * *
1228732 CTTTAAGTCCAATATCACTGCCCTTGAATTAGCATATTGGCACCTTTAACACCTTTAAGTCTAAT
1 CTTTAAGTCCAATGTCGCTG-CCTTGAATCAGCACATTGGCACCTTTAACACCTTTAAGTCCAAT
* * ** *
1228797 ATCGCTAACCTTGAATCAATATATTAGTATCTTTGTCCT
65 ATCGCTAACCTTGAATCAACATATTAGCATCTTTAACAT
****
1228836 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-TTTTC-TTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCT-GCCTTGAATCAGCACATTGGCACCTTTAACACCTTTAAGTCCAAT
* * *
1228899 ATCGCTAGCCTTGAATCAGCATATTGGCATCTTTAACAT
65 ATCGCTAACCTTGAATCAACATATTAGCATCTTTAACAT
* *
1228938 -TCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATT
1 CT-TTAAGTCCAATGTCGCT-GCCTTGAATCAGCACATT
1228976 AGCATTCTTC
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
101 1 0.01
102 74 0.63
103 1 0.01
104 41 0.35
105 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (103 bp):
CTTTAAGTCCAATGTCGCTGCCTTGAATCAGCACATTGGCACCTTTAACACCTTTAAGTCCAATA
TCGCTAACCTTGAATCAACATATTAGCATCTTTAACAT
Found at i:1229004 original size:52 final size:51
Alignment explanation
Indices: 1228835--1229073 Score: 198
Period size: 52 Copynumber: 4.6 Consensus size: 51
1228825 ATCTTTGTCC
* * * **
1228835 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTTTT
1 TCTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCTCA
* *
1228886 TCTT-AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTT-TAACA
1 TCTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCT--CA
* * * *
1228937 T-TCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCATTCTTCTCA
1 TCTTC-AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-TCTTCTCA
* * * ** *
1228989 TCTTCAAGTCTAATGTCGCT-GGCTGTGAATTAGCACATTGATATTCTTCGCA
1 TCTTCAAGTCCAATGTCGCTAGCCT-TGAATCAGCACATTGGCA-TCTTCTCA
* * * * *
1229041 TCTTTAAGCCCAATATCACCAGCCTTGAATCAG
1 TCTTCAAGTCCAATGTCGCTAGCCTTGAATCAG
1229074 TATATCGGCA
Statistics
Matches: 151, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
49 1 0.01
50 40 0.26
51 8 0.05
52 92 0.61
53 9 0.06
54 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (51 bp):
TCTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCTCA
Found at i:1238455 original size:18 final size:18
Alignment explanation
Indices: 1238434--1238474 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1238424 TCTTCATTTT
1238434 TTTTCTCTTTCTCTTTGC
1 TTTTCTCTTTCTCTTTGC
* * *
1238452 TTTTCTTTTTCTTTTTTC
1 TTTTCTCTTTCTCTTTGC
1238470 TTTTC
1 TTTTC
1238475 CCTGGCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTCTCTTTCTCTTTGC
Done.