Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 9 of 37
Found at i:1435210 original size:20 final size:20
Alignment explanation
Indices: 1435185--1435239 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
1435175 AAAAACCCAG
1435185 AATGTATCGATACAATGAAT-
1 AATGTATCGATACAAT-AATA
* *
1435205 AATGTATCAATACAAATAGTA
1 AATGTATCGATAC-AATAATA
1435226 AATGTATCGATACA
1 AATGTATCGATACA
1435240 TTTATTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATAATA
Found at i:1435415 original size:21 final size:21
Alignment explanation
Indices: 1435391--1435446 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1435381 GTTGGGACCT
1435391 TGTATCGATACATTAAAGAAA
1 TGTATCGATACATTAAAGAAA
1435412 TGTATCGATACATTAAAGAAA
1 TGTATCGATACATTAAAGAAA
1435433 TGTATCGATACATT
1 TGTATCGATACATT
1435447 TAGATAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATTAAAGAAA
Found at i:1439040 original size:31 final size:31
Alignment explanation
Indices: 1438955--1439346 Score: 304
Period size: 31 Copynumber: 12.5 Consensus size: 31
1438945 AAAGCAAGAG
* * * * **
1438955 TTTTCTTTTTTTTGTTCTTAAAGAGCAGGATG
1 TTTTCTTTCTTTT-TCCTCAAAGAGTAGGACA
*
1438987 TTTTCTTTC-TTGTCCTCAAAGAGTAGGACA
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
* *
1439017 TTTTCTTTATTTTTCTTCAAAGAGTAGGACA
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
* * * **
1439048 TTTTCTTTCTTTGTCCTCAAAGAGCAAGATG
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
* * ** *
1439079 TTGTCTTTCTTTATCCTCAAAGACCAAGACA
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
* * * *
1439110 TTTTCTTCCTTTGTCCTTAAAGAGTAAGACA
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
* **
1439141 TTTTCCTTTCTTTTTCTTCAAAGAACAGGACA
1 TTTT-CTTTCTTTTTCCTCAAAGAGTAGGACA
*
1439173 TTTTCCTTTCTTTTTCCTCAAAGAGCT-GGACG
1 TTTT-CTTTCTTTTTCCTCAAAGAG-TAGGACA
** *
1439205 TTTTCCTTTCTTAGTCCTCAAAGAGTAGGGCA
1 TTTT-CTTTCTTTTTCCTCAAAGAGTAGGACA
* * *
1439237 TTTTCTTTCTTTGTCCTCAAAGAGCAAGACA
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
* ** * **
1439268 TTTTCTTT-TTTTATCTTCAAAGAACAAGATG
1 TTTTCTTTCTTTT-TCCTCAAAGAGTAGGACA
* * * **
1439299 TTTTCTTTCTTTATCCTCAAAGAGCAAGATG
1 TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
*
1439330 TTTTCTTTCTTTGTCCT
1 TTTTCTTTCTTTTTCCT
1439347 TAAAAAGCGG
Statistics
Matches: 298, Mismatches: 56, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
30 24 0.08
31 186 0.62
32 88 0.30
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTTCTTTCTTTTTCCTCAAAGAGTAGGACA
Found at i:1439361 original size:31 final size:31
Alignment explanation
Indices: 1438938--1439385 Score: 197
Period size: 31 Copynumber: 14.4 Consensus size: 31
1438928 ACACCATTTG
* * *
1438938 TCCTAAAAAAGCAAGA-GTTTTCTTTTTTTTG
1 TCCTCAAAAAGCAAGATGTTTTC-TTTCTTTA
* * * * *
1438969 TTCTTAAAGAGCAGGATGTTTTCTTTC-TTG
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* * * ** * *
1438999 TCCTCAAAGAGTAGGACATTTTCTTTATTTT
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* * * * ** *
1439030 TCTTCAAAGAGTAGGACATTTTCTTTCTTTG
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* *
1439061 TCCTCAAAGAGCAAGATGTTGTCTTTCTTTA
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* * ** * *
1439092 TCCTCAAAGACCAAGACATTTTCTTCCTTTG
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* * * ** *
1439123 TCCTTAAAGAGTAAGACATTTTCCTTTCTTTT
1 TCCTCAAAAAGCAAGATGTTTT-CTTTCTTTA
* * ** *
1439155 TCTTCAAAGAA-CAGGACATTTTCCTTTCTTTT
1 TCCTCAAA-AAGCAAGATGTTTT-CTTTCTTTA
* ** *
1439187 TCCTCAAAGAGCTGGACGTTTTCCTTTC-TTA
1 TCCTCAAAAAGCAAGATGTTTT-CTTTCTTTA
* * * *** *
1439218 GTCCTCAAAGAGTAGGGCATTTTCTTTCTTTG
1 -TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* ** *
1439250 TCCTCAAAGAGCAAGACATTTTCTTTTTTTA
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
*
1439281 TCTTCAAAGAA-CAAGATGTTTTCTTTCTTTA
1 TCCTCAAA-AAGCAAGATGTTTTCTTTCTTTA
* *
1439312 TCCTCAAAGAGCAAGATGTTTTCTTTCTTTG
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
* ** * **
1439343 TCCTTAAAAAGCGGGATGTTGTCTTT-TTCC
1 TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
*
1439373 TCCTCAAAGAGCA
1 TCCTCAAAAAGCA
1439386 GGACATTTTT
Statistics
Matches: 337, Mismatches: 71, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
30 37 0.11
31 218 0.65
32 81 0.24
33 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (31 bp):
TCCTCAAAAAGCAAGATGTTTTCTTTCTTTA
Found at i:1439361 original size:62 final size:62
Alignment explanation
Indices: 1438934--1439402 Score: 378
Period size: 62 Copynumber: 7.6 Consensus size: 62
1438924 ATGGACACCA
* * * * **
1438934 TTTGTCCTAAAAAAGCAAGA-GTTTTCTTTTTTTTGTTCTTAAAGAGCAGGATGTTTTCTTTC
1 TTTGTCCTCAAAGAGCAAGACGTTTTC-TTTCTTTGTCCTTAAAGAGCAGGACATTTTCTTTC
* * * * * *
1438996 -TTGTCCTCAAAGAGTAGGACATTTTCTTTATTT-TTCTTCAAAGAGTAGGACATTTTCTTTC
1 TTTGTCCTCAAAGAGCAAGACGTTTTCTTTCTTTGTCCTT-AAAGAGCAGGACATTTTCTTTC
* * * * * * *
1439057 TTTGTCCTCAAAGAGCAAGATGTTGTCTTTCTTTATCCTCAAAGACCAAGACATTTTCTTCC
1 TTTGTCCTCAAAGAGCAAGACGTTTTCTTTCTTTGTCCTTAAAGAGCAGGACATTTTCTTTC
* * * * *
1439119 TTTGTCCTTAAAGAGTAAGACATTTTCCTTTCTTT-TTCTTCAAAGAACAGGACATTTTCCTTTC
1 TTTGTCCTCAAAGAGCAAGACGTTTT-CTTTCTTTGTCCTT-AAAGAGCAGGACATTTT-CTTTC
* ** * * * *
1439183 TTTTTCCTCAAAGAGCTGGACGTTTTCCTTTCTTAGTCCTCAAAGAGTAGGGCATTTTCTTTC
1 TTTGTCCTCAAAGAGCAAGACGTTTT-CTTTCTTTGTCCTTAAAGAGCAGGACATTTTCTTTC
* * * * * **
1439246 TTTGTCCTCAAAGAGCAAGACATTTTCTTTTTTTAT-CTTCAAAGAACAAGATGTTTTCTTTC
1 TTTGTCCTCAAAGAGCAAGACGTTTTCTTTCTTTGTCCTT-AAAGAGCAGGACATTTTCTTTC
* * * * ** *
1439308 TTTATCCTCAAAGAGCAAGATGTTTTCTTTCTTTGTCCTTAAAAAGCGGGATGTTGTCTTT-
1 TTTGTCCTCAAAGAGCAAGACGTTTTCTTTCTTTGTCCTTAAAGAGCAGGACATTTTCTTTC
** * *
1439369 TTCCTCCTCAAAGAGCAGGACATTTT-TTT-TTTGT
1 TTTGTCCTCAAAGAGCAAGACGTTTTCTTTCTTTGT
1439403 TCGAAAAGAG
Statistics
Matches: 325, Mismatches: 72, Indels: 23
0.77 0.17 0.05
Matches are distributed among these distances:
59 5 0.02
60 8 0.02
61 63 0.19
62 144 0.44
63 56 0.17
64 46 0.14
65 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (62 bp):
TTTGTCCTCAAAGAGCAAGACGTTTTCTTTCTTTGTCCTTAAAGAGCAGGACATTTTCTTTC
Found at i:1440091 original size:20 final size:20
Alignment explanation
Indices: 1440066--1440179 Score: 104
Period size: 20 Copynumber: 5.6 Consensus size: 20
1440056 ATTCTAGGAT
*
1440066 TGTATTTATACAATTAGCAA
1 TGTATTGATACAATTAGCAA
* * *
1440086 TGTATTGATACATTCTAGGAT
1 TGTATTGATACAAT-TAGCAA
1440107 TGTATCT-ATACAATTAGCAA
1 TGTAT-TGATACAATTAGCAA
* * *
1440127 TGTATTGATACATTCTAGGAT
1 TGTATTGATACAAT-TAGCAA
** *
1440148 TGTATCAATACAATTAGTAA
1 TGTATTGATACAATTAGCAA
1440168 TGTATTGATACA
1 TGTATTGATACA
1440180 TTCTGGGTTT
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
19 1 0.01
20 41 0.56
21 30 0.41
22 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (20 bp):
TGTATTGATACAATTAGCAA
Found at i:1440109 original size:41 final size:41
Alignment explanation
Indices: 1440052--1440183 Score: 237
Period size: 41 Copynumber: 3.2 Consensus size: 41
1440042 AACTATATCA
*
1440052 ATACATTCTAGGATTGTATTTATACAATTAGCAATGTATTG
1 ATACATTCTAGGATTGTATCTATACAATTAGCAATGTATTG
1440093 ATACATTCTAGGATTGTATCTATACAATTAGCAATGTATTG
1 ATACATTCTAGGATTGTATCTATACAATTAGCAATGTATTG
* *
1440134 ATACATTCTAGGATTGTATCAATACAATTAGTAATGTATTG
1 ATACATTCTAGGATTGTATCTATACAATTAGCAATGTATTG
1440175 ATACATTCT
1 ATACATTCT
1440184 GGGTTTTTTG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (41 bp):
ATACATTCTAGGATTGTATCTATACAATTAGCAATGTATTG
Found at i:1442180 original size:13 final size:13
Alignment explanation
Indices: 1442162--1442186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1442152 ATATTGCTTA
1442162 GTATCGATACATT
1 GTATCGATACATT
1442175 GTATCGATACAT
1 GTATCGATACAT
1442187 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:1442204 original size:32 final size:33
Alignment explanation
Indices: 1442141--1442204 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
1442131 CACACCTAGG
* *
1442141 TGTATCGATAGATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
* *
1442174 TGTATCGATACATGTT-CTTGGTATCAATACA
1 TGTATCGATACATATTGCTTAGTATCAATACA
1442205 CCATAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCAATACAT
Found at i:1442333 original size:52 final size:52
Alignment explanation
Indices: 1442252--1442359 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
1442242 ACCCTAATGC
* *
1442252 AATTGTATCAATACATGAAAAATTGTATCGATACATTAAGTCCAACGGCTAT
1 AATTGTATCAATACATGAAAAATTATATCGATACATTAAGTCCAACGGCTAG
* * ** * *
1442304 AATTGTATCGATACATTATGAATTATATCGATACATTGAGTCCAATGGCTAG
1 AATTGTATCAATACATGAAAAATTATATCGATACATTAAGTCCAACGGCTAG
1442356 AATT
1 AATT
1442360 TCAAATGCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (52 bp):
AATTGTATCAATACATGAAAAATTATATCGATACATTAAGTCCAACGGCTAG
Found at i:1442823 original size:34 final size:33
Alignment explanation
Indices: 1442780--1442874 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
1442770 GAAGTGATTG
1442780 AGAGGTTTTATCTTAGCCTTTGAAAAGATAGGGA
1 AGAGGTTTTATCTTAGCCTTTGAAAAGATA-GGA
* *
1442814 AGAGGTTTTATCTTA-TCTTGTGAAAAGATA-GC
1 AGAGGTTTTATCTTAGCCTT-TGAAAAGATAGGA
* *
1442846 A-AGGTTCTATCTTAGCC-TTCAAAAGATAG
1 AGAGGTTTTATCTTAGCCTTTGAAAAGATAG
1442875 TGTTGTAAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
30 9 0.17
31 13 0.25
32 3 0.06
33 3 0.06
34 25 0.47
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.34
Consensus pattern (33 bp):
AGAGGTTTTATCTTAGCCTTTGAAAAGATAGGA
Found at i:1448917 original size:31 final size:31
Alignment explanation
Indices: 1448809--1448933 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
1448799 AAAGTGATTG
* *
1448809 AGAGGTTCTATCTTCGCTTGTGAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATA---A
* *
1448843 AGAGATTTTATCTTAGCCTGTGAAAAGATAA
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAA
* **
1448874 GGTTGTTCTATCTTAGCCTGTGAAAAGATAA
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAA
* * * *
1448905 TGAGGTTTTATCTTAGACT-TCAAAAGATA
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATA
1448934 GTATTGTAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
30 9 0.12
31 41 0.54
34 26 0.34
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (31 bp):
AGAGGTTCTATCTTAGCCTGTGAAAAGATAA
Found at i:1453783 original size:76 final size:76
Alignment explanation
Indices: 1453657--1453810 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
1453647 CGAACGTCTC
*
1453657 GAAGAATATCTAGTTGGCTCTCTCACGACCTAACCTTTTAGGCTCTAACCAAGGCTATACAGAAA
1 GAAGAATATCTAGTTGGCTCTCTCACGACCTAACCTTTTAGGCTCTAACCAAGGCTATACAAAAA
1453722 AATATTTATCA
66 AATATTTATCA
1453733 GAAGAATATCTAGTTGGCTCTCTCACGACCTAACCTTTTAGGCTCTAACCAAGGCTATACAAAAA
1 GAAGAATATCTAGTTGGCTCTCTCACGACCTAACCTTTTAGGCTCTAACCAAGGCTATACAAAAA
1453798 AATATTTATCA
66 AATATTTATCA
1453809 GA
1 GA
1453811 TTTTTGTTTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (76 bp):
GAAGAATATCTAGTTGGCTCTCTCACGACCTAACCTTTTAGGCTCTAACCAAGGCTATACAAAAA
AATATTTATCA
Found at i:1454811 original size:61 final size:57
Alignment explanation
Indices: 1454707--1454822 Score: 151
Period size: 61 Copynumber: 2.0 Consensus size: 57
1454697 TATTAGGTGT
* * *
1454707 TGTTCATCATCCATAAAAAAGGCAAAAAAAAAGCGTTATAGTGTTCTAACCCTTTAC
1 TGTTCACCATCCATAAAAAAAGCAAAAAAAAAGCGTTATAGTGTTATAACCCTTTAC
* *
1454764 TGTTCACCATCCATAAAAAAAAAGCAAAGAAAAAAAGTGTTTTAGTGTTATAACCCTTT
1 TGTTCACCATCCAT--AAAAAAAGC-AA-AAAAAAAGCGTTATAGTGTTATAACCCTTT
1454823 TCCATCTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 13 0.26
59 8 0.16
60 2 0.04
61 27 0.54
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (57 bp):
TGTTCACCATCCATAAAAAAAGCAAAAAAAAAGCGTTATAGTGTTATAACCCTTTAC
Found at i:1454958 original size:28 final size:29
Alignment explanation
Indices: 1454895--1454964 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
1454885 TTCCTCTTTA
* * *
1454895 TTGATTTCTTTTCCTTTGATATTTCTTAC
1 TTGATTTCATTTCCCTTCATATTTCTTAC
* *
1454924 TT-TTTTCATTTCCCTTCATATTTCTT-G
1 TTGATTTCATTTCCCTTCATATTTCTTAC
1454951 TTGATTTCACTTTC
1 TTGATTTCA-TTTC
1454965 TTGATCATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.06
28 25 0.76
29 6 0.18
ACGTcount: A:0.13, C:0.20, G:0.06, T:0.61
Consensus pattern (29 bp):
TTGATTTCATTTCCCTTCATATTTCTTAC
Found at i:1458511 original size:166 final size:165
Alignment explanation
Indices: 1458077--1458770 Score: 736
Period size: 166 Copynumber: 4.2 Consensus size: 165
1458067 AAATTATGGG
* * * **
1458077 GTTTTCTACTCCGTAAATTTTTTTCGAGGGGATTTTTCTTGGTAGTTAATTTTTAAAATTCATCA
1 GTTTTCTACTTCATAAATATTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
* * * * * * *
1458142 AATATTATTAATTAATTCATACTAAATTAGTTTTTAAAAATTCGTTCATTTTCTTGAGTTTGTGA
66 AATATCATTATTTAA-TCACATTAAATTA-ATTTTAAAAATTCATTCATTTTCATGAGTTTGTGA
*
1458207 ATTTTTTTCTTGAAA---T-TTTTTT-GAAAAACAGA
129 ATTTTTTCCTTGAAATTCTCTTTTTTCGAAAAACAGA
* * *
1458239 GTTTTCTAATTCATAAAT-TTTTTTGGGGGGATTTTTCTTAGGCTTTTT-ATTTTTAAAATTCAT
1 GTTTTCTACTTCATAAATATTTTTCGAGGGGATTTTTCTT-GG-TTTTTAATTTTTAAAATTCAT
* * * *
1458302 CAAATATTATAATTTAAT-TCATGCTAAATTAATTTTCAAAATTCATTCATTTTCATGAGTTTGT
64 CAAATATCATTATTTAATCACAT--TAAATTAATTTTAAAAATTCATTCATTTTCATGAGTTTGT
* *
1458366 GAATTTTTTCCTTGAAATTTTCTTTTTTTGAAAAACAGA
127 GAATTTTTTCCTTGAAATTCTCTTTTTTCGAAAAACAGA
*
1458405 GTTTTCTACTTCATAAATATTTTT-GAAGGGATTTTT-TATGGTTTTTAATTTTTAAAATTCATC
1 GTTTTCTACTTCATAAATATTTTTCGAGGGGATTTTTCT-TGGTTTTTAATTTTTAAAATTCATC
* * * *
1458468 AAATATCATTATTTATATCACATTAAATTAATTTTAAAAAATTCCTTCATTTTCTTGTGTTTTTG
65 AAATATCATTATTTA-ATCACATTAAATTAATTTT-AAAAATTCATTCATTTTCATGAGTTTGTG
* * *
1458533 AATTTTTTTCTTTAAATTCTCTTATTTCGAAAAAC-GAA
128 AATTTTTTCCTTGAAATTCTCTTTTTTCGAAAAACAG-A
* * * * *
1458571 GTTTTCTACTCCGTATAT-TTTTTCGGGGGGATTTTTCTTGGTTTTTAATTTTCAAAATTCATCA
1 GTTTTCTACTTCATAAATATTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
* * * * * *
1458635 AATATCATTATTTATTGCATATTAAATTAGTTTTCAATAATTAATTCATTTTCATGAATTT-TGA
66 AATATCATTATTTAAT-CACATTAAATTAATTTT-AAAAATTCATTCATTTTCATGAGTTTGTGA
* * *
1458699 A-TTTTTCTTTGAAATTCCCTTTTTCTCGAAAAACTGA
129 ATTTTTTCCTTGAAATTCTCTTTTT-TCGAAAAACAGA
* *
1458736 GATTTCTA-TTCCATAAATA-TTTTCGAGGGAATTTT
1 GTTTTCTACTT-CATAAATATTTTTCGAGGGGATTTT
1458771 ATTTGAATGC
Statistics
Matches: 449, Mismatches: 60, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
160 1 0.00
161 65 0.14
162 54 0.12
163 3 0.01
164 25 0.06
165 97 0.22
166 195 0.43
167 9 0.02
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (165 bp):
GTTTTCTACTTCATAAATATTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
AATATCATTATTTAATCACATTAAATTAATTTTAAAAATTCATTCATTTTCATGAGTTTGTGAAT
TTTTTCCTTGAAATTCTCTTTTTTCGAAAAACAGA
Found at i:1458832 original size:331 final size:323
Alignment explanation
Indices: 1458130--1458778 Score: 771
Period size: 331 Copynumber: 2.0 Consensus size: 323
1458120 AGTTAATTTT
* * * * * *
1458130 TAAAATTCATCAAATATTATTAATTA-ATTCATACTAAATTAGTTTTTAAAAATTCGTTCATTTT
1 TAAAATTCATCAAATATCATTATTTATA-TCACA-TAAATTAATTTTAAAAAATTCCTTCATTTT
*
1458194 CTTGAGTTTGTGAATTTTTTTCTTGAAATTTTTTTGAAAAACAGAGTTTTCTAATTCATAAATTT
64 CTTGAGTTTGTGAATTTTTTTCTTGAAATTTTTTTGAAAAACAGAGTTTTCTAATCCATAAATTT
* * *
1458259 TTTTGGGGGGATTTTTCTTAGGCTTTTTATTTTTAAAATTCATCAAATATTATAATTTAATTCAT
129 TTTCGGGGGGATTTTTCTTAGGCTTTTTATTTTCAAAATTCATCAAATATCATAATTTAATTCAT
* * * **
1458324 GCTAAATTAATTTTCAAAATTCATTCATTTTCATGAGTTTGTGAATTTTTTCCTTGAAATTTTCT
194 ACTAAATTAATTTTCAAAATTAATTCATTTTCATGAATTTGTGAATTTTTTCCTTGAAATTCCCT
* * * * *
1458389 TTTTTTGAAAAACAGAGTTTTCTACTTCATAAATATTTTTGAAGGGATTTTTTATGGTTTTTAAT
259 TTTTTCGAAAAACAGAGATTTCTACTTCATAAATATTTTCGAAGGGATATTTTA--G-TTTGAAT
* *
1458454 TTT
321 ATC
1458457 TAAAATTCATCAAATATCATTATTTATATCACATTAAATTAATTTTAAAAAATTCCTTCATTTTC
1 TAAAATTCATCAAATATCATTATTTATATCACA-TAAATTAATTTTAAAAAATTCCTTCATTTTC
* * * * *
1458522 TTGTGTTTTTGAATTTTTTTCTTTAAATTCTCTTATTTCGAAAAAC-GAAGTTTTCTACTCCGTA
65 TTGAGTTTGTGAATTTTTTTCTTGAAA-T-T-TT-TTT-GAAAAACAG-AGTTTTCTAATCCATA
* *
1458586 TATTTTTTCGGGGGGATTTTTCTT-GG-TTTTTAATTTTCAAAATTCATCAAATATCATTATTT-
124 AATTTTTTCGGGGGGATTTTTCTTAGGCTTTTT-ATTTTCAAAATTCATCAAATATCATAATTTA
* * *
1458648 ATTGCATATTAAATTAGTTTTCAATAATTAATTCATTTTCATGAATTT-TGAA-TTTTTCTTTGA
188 ATT-CATACTAAATTAATTTTCAA-AATTAATTCATTTTCATGAATTTGTGAATTTTTTCCTTGA
*
1458711 AATTCCCTTTTTCTCGAAAAACTGAGATTTCTA-TTCCATAAATATTTTCG-AGGGA-ATTTTA-
251 AATTCCCTTTTT-TCGAAAAACAGAGATTTCTACTT-CATAAATATTTTCGAAGGGATATTTTAG
1458772 TTTGAAT
314 TTTGAAT
1458779 GCATCTAATA
Statistics
Matches: 278, Mismatches: 32, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
325 6 0.02
327 80 0.29
328 2 0.01
329 6 0.02
330 37 0.13
331 84 0.30
332 63 0.23
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (323 bp):
TAAAATTCATCAAATATCATTATTTATATCACATAAATTAATTTTAAAAAATTCCTTCATTTTCT
TGAGTTTGTGAATTTTTTTCTTGAAATTTTTTTGAAAAACAGAGTTTTCTAATCCATAAATTTTT
TCGGGGGGATTTTTCTTAGGCTTTTTATTTTCAAAATTCATCAAATATCATAATTTAATTCATAC
TAAATTAATTTTCAAAATTAATTCATTTTCATGAATTTGTGAATTTTTTCCTTGAAATTCCCTTT
TTTCGAAAAACAGAGATTTCTACTTCATAAATATTTTCGAAGGGATATTTTAGTTTGAATATC
Found at i:1458845 original size:19 final size:20
Alignment explanation
Indices: 1458805--1458852 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1458795 TTGAACTCAC
*
1458805 TTTAATTTAGTTTTAAAAAT
1 TTTAATTTAGTTTCAAAAAT
*
1458825 TTTAATTTA-TTTCATAAAT
1 TTTAATTTAGTTTCAAAAAT
1458844 TTTGAATTT
1 TTT-AATTT
1458853 TTTTGGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAATTTAGTTTCAAAAAT
Found at i:1458947 original size:10 final size:10
Alignment explanation
Indices: 1458932--1458968 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
1458922 ACCAAATATT
*
1458932 TCTCTCTCTC
1 TCTCTCTGTC
1458942 TCTCTCTGTC
1 TCTCTCTGTC
*
1458952 TCTCTCTGTG
1 TCTCTCTGTC
1458962 TCTCTCT
1 TCTCTCT
1458969 TTTAACAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.08, T:0.51
Consensus pattern (10 bp):
TCTCTCTGTC
Found at i:1458953 original size:12 final size:12
Alignment explanation
Indices: 1458932--1458968 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1458922 ACCAAATATT
*
1458932 TCTCTCTCTCTC
1 TCTCTGTCTCTC
1458944 TCTCTGTCTCTC
1 TCTCTGTCTCTC
*
1458956 TCTGTGTCTCTC
1 TCTCTGTCTCTC
1458968 T
1 T
1458969 TTTAACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.41, G:0.08, T:0.51
Consensus pattern (12 bp):
TCTCTGTCTCTC
Found at i:1463369 original size:13 final size:13
Alignment explanation
Indices: 1463351--1463376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1463341 TAGGGTAGCT
1463351 TTGTATCGATACA
1 TTGTATCGATACA
1463364 TTGTATCGATACA
1 TTGTATCGATACA
1463377 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1463903 original size:20 final size:20
Alignment explanation
Indices: 1463874--1463911 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1463864 TACTACTAGT
1463874 TTCATATATCGATACAATTC
1 TTCATATATCGATACAATTC
*
1463894 TTCATGTATCGATACAAT
1 TTCATATATCGATACAAT
1463912 GAACATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
TTCATATATCGATACAATTC
Found at i:1464662 original size:22 final size:21
Alignment explanation
Indices: 1464610--1464649 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1464600 ATTTCTTAAA
*
1464610 AAAATAATCTCTCCCTTTTAT
1 AAAATAATTTCTCCCTTTTAT
1464631 AAAATAATTTCTCCCTTTT
1 AAAATAATTTCTCCCTTTT
1464650 TTCAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATAATTTCTCCCTTTTAT
Found at i:1471790 original size:21 final size:22
Alignment explanation
Indices: 1471764--1471806 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
1471754 CCATATATAA
1471764 CTCCCCCTTAATAAAAT-TTTT
1 CTCCCCCTTAATAAAATATTTT
1471785 CTCCCCCTTAATAAAATATTTT
1 CTCCCCCTTAATAAAATATTTT
1471807 AAAGCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCCCCCTTAATAAAATATTTT
Found at i:1471932 original size:22 final size:22
Alignment explanation
Indices: 1471906--1471950 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1471896 CCTTTTTATA
1471906 AAACAAGTTTATTTCTCAAAAT
1 AAACAAGTTTATTTCTCAAAAT
1471928 AAACAAGTTTATTTCTCAAAAT
1 AAACAAGTTTATTTCTCAAAAT
1471950 A
1 A
1471951 TTTCTCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (22 bp):
AAACAAGTTTATTTCTCAAAAT
Found at i:1472036 original size:24 final size:24
Alignment explanation
Indices: 1472009--1472060 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
1471999 CGTTATAGCA
*
1472009 AAAATGAGATCAAGGGAAGCATAG
1 AAAATGAGATCAAGGAAAGCATAG
1472033 AAAATGAGATCAAGGAAAGCATAG
1 AAAATGAGATCAAGGAAAGCATAG
1472057 AAAA
1 AAAA
1472061 CGATACCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.56, C:0.08, G:0.25, T:0.12
Consensus pattern (24 bp):
AAAATGAGATCAAGGAAAGCATAG
Found at i:1478157 original size:3 final size:3
Alignment explanation
Indices: 1478149--1478191 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
1478139 TGAGTGAACT
* * * *
1478149 TCA TCA TCA TCA TCA CCA TCA TCA TCA TCT TCT TCT TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1478192 TATCTTTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:1479277 original size:33 final size:32
Alignment explanation
Indices: 1479219--1479281 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1479209 AGAAGCAATT
1479219 TATTGATACAATTCATCATGAATCGATACATTG
1 TATTGATACAATTCA-CATGAATCGATACATTG
*
1479252 TATTGATACAATGTGC-CATGTATCGATACA
1 TATTGATACAAT-T-CACATGAATCGATACA
1479282 AATAGTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (32 bp):
TATTGATACAATTCACATGAATCGATACATTG
Found at i:1479355 original size:19 final size:20
Alignment explanation
Indices: 1479311--1479364 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1479301 CTACCAGTTT
**
1479311 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
1479331 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1479350 CATGTATCGATACAA
1 CATGTATCGATACAA
1479365 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1481759 original size:22 final size:20
Alignment explanation
Indices: 1481714--1481761 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1481704 TTTGTTGATG
*
1481714 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
1481734 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
*
1481755 AATTTGA
1 ATTTTGA
1481762 AAAGATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:1481760 original size:21 final size:22
Alignment explanation
Indices: 1481721--1481762 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1481711 ATGATTTTGA
* *
1481721 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1481743 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
1481763 AAGATTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1484176 original size:80 final size:79
Alignment explanation
Indices: 1484087--1484249 Score: 202
Period size: 79 Copynumber: 2.1 Consensus size: 79
1484077 GTAAAATCAA
* * *
1484087 GGTTGGAGTATCCTATTGAAAATAACGGGGTTAGATTATCCCCAATTAGTGAAAA-ATCAGTGTT
1 GGTTAGAGTATCC-ATCGAAAATAACGGGGTTAGAGTATCCCCAATT-GTGAAAAGATCAGTGTT
*
1484151 TTGGAAATAAAACTGG
64 TTAGAAATAAAACTGG
* * * **
1484167 GGTTAGAGTATTCGTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAGATTGGTGTTTT
1 GGTTAGAGTATCCATCGAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAGATCAGTGTTTT
* *
1484232 AGAAATATAATTGG
66 AGAAATAAAACTGG
1484246 GGTT
1 GGTT
1484250 GGCGTATACT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
78 7 0.10
79 53 0.75
80 11 0.15
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (79 bp):
GGTTAGAGTATCCATCGAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAGATCAGTGTTTT
AGAAATAAAACTGG
Found at i:1484211 original size:79 final size:79
Alignment explanation
Indices: 1484104--1484249 Score: 213
Period size: 79 Copynumber: 1.8 Consensus size: 79
1484094 GTATCCTATT
* *
1484104 GAAAATAACGGGGTTAGATTATCCCCAATTAGTGAAAA-ATCAGTGTTTTGGAAATAAAACTGGG
1 GAAAATAACGGGGTTAGAGTATCCCCAATT-GTGAAAAGATCAGTGTTTTAGAAATAAAACTGGG
1484168 GTTAGAGTATTCGTC
65 GTTAGAGTATTCGTC
* ** * *
1484183 GAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAGATTGGTGTTTTAGAAATATAATTGGGG
1 GAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAGATCAGTGTTTTAGAAATAAAACTGGGG
1484248 TT
66 TT
1484250 GGCGTATACT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 7 0.12
79 52 0.88
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (79 bp):
GAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAGATCAGTGTTTTAGAAATAAAACTGGGG
TTAGAGTATTCGTC
Found at i:1486651 original size:20 final size:20
Alignment explanation
Indices: 1486626--1486678 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1486616 ATCGATATAT
* * *
1486626 TGTATCGATGCAATGAACCA
1 TGTATCGATACAATAAACAA
1486646 TGTATCGATACAATAAACAA
1 TGTATCGATACAATAAACAA
1486666 TGTATCGATACAA
1 TGTATCGATACAA
1486679 ATTGTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAATAAACAA
Found at i:1487296 original size:41 final size:41
Alignment explanation
Indices: 1487251--1487603 Score: 217
Period size: 41 Copynumber: 8.4 Consensus size: 41
1487241 GAAGGAGGCA
* *
1487251 TCCTGCTCTTTAAGGACAAAGGAAAAGGAGAATGAAATGGG
1 TCCTGCTCTTTGAGGACAAAGGAAAAGGAGAATGAAATGCG
* * *
1487292 TCCTGCTCCTTGAGGACAAAGGAAAAAAAGGA-AATAAAATGCA
1 TCCTGCTCTTTGAGGACAAAGG---AAAAGGAGAATGAAATGCG
** * * *
1487335 TTTTGCCCTTTGTA-GACAAAGGAAAAAGGA-AATTAAATGTG
1 TCCTGCTCTTTG-AGGACAAAGG-AAAAGGAGAATGAAATGCG
* *
1487376 TCCTACTTTTTGAGGACAAAGGAAAAAGGAGAAT-AAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGG-AAAAGGAGAATGAAA-TGCG
* * * *
1487418 TCCTACTCTTTGAGAACTAGAAGGGAAAAGAAGGAAAT-AAAGTGTG
1 TCCTGCTCTTTGAGGAC-A-AA-GGAAAAGGA-G-AATGAAA-TGCG
* * *
1487464 TCCTGCTCTTTGAGGACAAAGGAAAA-AAGAAAAGAAA-GCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAGGAG-AATGAAATGCG
* * *
1487504 TCTTGCTCTTTGAGGACATAAAGGAAAAGAAGGAAATGAAATGTG
1 TCCTGCTCTTTGAGGAC--AAAGGAAAAGGA-G-AATGAAATGCG
* *
1487549 TACTGCTCTTTGAGGATAAAGGAGAAA--AGAA--AAA-GCCG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAGGAGAATGAAATG-CG
*
1487587 TCTTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1487604 TAAAAAGTGC
Statistics
Matches: 254, Mismatches: 38, Indels: 43
0.76 0.11 0.13
Matches are distributed among these distances:
37 1 0.00
38 18 0.07
40 20 0.08
41 67 0.26
42 36 0.14
43 39 0.15
44 29 0.11
45 19 0.07
46 25 0.10
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAGGAGAATGAAATGCG
Found at i:1487476 original size:88 final size:84
Alignment explanation
Indices: 1487275--1487583 Score: 272
Period size: 85 Copynumber: 3.6 Consensus size: 84
1487265 GACAAAGGAA
* * **
1487275 AAGGAGAATGAAATGGGTCCTGCTCCTTGAGGACAAAGGAAAAAAAGGAAATA-AAATGCATTTT
1 AAGGA-AAT-AAATGTGTCCTGCTCTTTGAGGACAAAGG--AAAAAGGAAA-AGAAA-GCATCCT
* *
1487339 GCCCTTTGTAG-AC--AAAGG-AAA-
60 ACTCTTTG-AGAACATAAAGGAAAAG
* * * * *
1487360 AAGGAAATTAAATGTGTCCTACTTTTTGAGGACAAAGGAAAAAGGAGAATAAAGTGCGTCCTACT
1 AAGGAAA-TAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAAGAAA--GCATCCTACT
1487425 CTTTGAGAAC-TAGAAGGGAAAAG
63 CTTTGAGAACATA-AA-GGAAAAG
* * *
1487448 AAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAAGAAAGCATCTTGCTCT
1 AAGGAAATAAA-TGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAAGAAAGCATCCTACTCT
*
1487513 TTGAGGACATAAAGGAAAAG
65 TTGAGAACATAAAGGAAAAG
* * *
1487533 AAGGAAATGAAATGTGTACTGCTCTTTGAGGATAAAGGAGAAAAGAAAAAG
1 AAGGAAAT-AAATGTGTCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAAAG
1487584 CCGTCTTGCT
Statistics
Matches: 188, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
81 1 0.01
82 14 0.07
83 13 0.07
84 28 0.15
85 48 0.26
86 32 0.17
87 9 0.05
88 43 0.23
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (84 bp):
AAGGAAATAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAGGAAAAGAAAGCATCCTACTCTT
TGAGAACATAAAGGAAAAG
Found at i:1487555 original size:85 final size:84
Alignment explanation
Indices: 1487248--1487607 Score: 348
Period size: 84 Copynumber: 4.3 Consensus size: 84
1487238 AAGGAAGGAG
* * * * *
1487248 GCATCCTGCTCTTTAAGGAC-AAAGGAAAAGGA-G-AATGAAATGGGTCCTGCTCCTTGAGGACA
1 GCATCTTGCTCTTTGAGGACTAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACA
1487310 AAGGAAAAAAAGGAAATAAAAT
66 AAGG-AAAAAA-GAAA-AAAAT
* * * * *
1487332 GCATTTTGCCCTTTGTA-GAC-AAAGG-AAA-AAGGAAATTAAATGTGTCCTACTTTTTGAGGAC
1 GCATCTTGCTCTTTG-AGGACTAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGAC
* *
1487393 AAAGGAAAAAGGAGAATAAAGT
65 AAAGGAAAAA--AGAAAAAAAT
* * * *
1487415 GCGTCCTACTCTTTGAGAACTAGAAGGGAAAAGAAGGAAAT-AAAGTGTGTCCTGCTCTTTGAGG
1 GCATCTTGCTCTTTGAGGACTA-AA-GGAAAAGAAGGAAATGAAA-TGTGTCCTGCTCTTTGAGG
1487479 ACAAAGGAAAAAAGAAAAGAAA-
63 ACAAAGGAAAAAAGAAAA-AAAT
* *
1487501 GCATCTTGCTCTTTGAGGACATAAAGGAAAAGAAGGAAATGAAATGTGTACTGCTCTTTGAGGAT
1 GCATCTTGCTCTTTGAGGAC-TAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGAC
*
1487566 AAAGGAGAAAAG--AAAAA-
65 AAAGGAAAAAAGAAAAAAAT
*
1487583 GCCGTCTTGCTCTTTGAGGACTAAA
1 G-CATCTTGCTCTTTGAGGACTAAA
1487608 AAGTGCCACC
Statistics
Matches: 230, Mismatches: 30, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
82 10 0.04
83 45 0.20
84 51 0.22
85 49 0.21
86 28 0.12
87 10 0.04
88 37 0.16
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (84 bp):
GCATCTTGCTCTTTGAGGACTAAAGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACA
AAGGAAAAAAGAAAAAAAT
Found at i:1487749 original size:60 final size:59
Alignment explanation
Indices: 1487587--1487760 Score: 183
Period size: 61 Copynumber: 2.9 Consensus size: 59
1487577 GAAAAAGCCG
* *
1487587 TCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGTTTTGAAAAGGAAAGATA
1 TCTTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTATGTGGGTTTTG-AAAGGAAAGATA
* * *
1487648 TCTTGCTTTTTGAGCACTAATAGGTACCACCAACTCT-TGTGGGTTTTGAAAGGAAAAGGCAT-
1 TCTTGCTCTTTGAGGACTAA-AGGTGCCACCAACT-TATGTGGGTTTTGAAAGG-AAA-G-ATA
* * * *
1487710 TC-TGCTCTTTAAGGACTCAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGG
1 TCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGTTTTGAAAGG
1487761 CGTCCTATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
59 1 0.01
60 34 0.36
61 55 0.58
62 3 0.03
63 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (59 bp):
TCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGTTTTGAAAGGAAAGATA
Found at i:1489374 original size:13 final size:13
Alignment explanation
Indices: 1489356--1489382 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1489346 ATAATTCATC
1489356 ATGTATCGATACA
1 ATGTATCGATACA
1489369 ATGTATCGATACA
1 ATGTATCGATACA
1489382 A
1 A
1489383 ATAGTGGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1490033 original size:21 final size:23
Alignment explanation
Indices: 1490009--1490056 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
1489999 GAATTTTTTT
1490009 CTTTAATCAAA-AATTTCTC-CC
1 CTTTAATCAAAGAATTTCTCGCC
*
1490030 CTTTAATCAAAGCATTTCTCGCC
1 CTTTAATCAAAGAATTTCTCGCC
1490053 CTTT
1 CTTT
1490057 CTAAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (23 bp):
CTTTAATCAAAGAATTTCTCGCC
Found at i:1491990 original size:33 final size:34
Alignment explanation
Indices: 1491923--1492001 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
1491913 TAGTACCCAA
1491923 TGCATCGATACAATGTATCGATACTAAGGAATAT
1 TGCATCGATACAATGTATCGATACTAAGGAATAT
1491957 TGCATCGATACAATGTATCGATAC-AAGGAATAT
1 TGCATCGATACAATGTATCGATACTAAGGAATAT
*
1491990 TGTATCGATACA
1 TGCATCGATACA
1492002 TCTAGGTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 20 0.45
34 24 0.55
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (34 bp):
TGCATCGATACAATGTATCGATACTAAGGAATAT
Found at i:1491995 original size:20 final size:20
Alignment explanation
Indices: 1491936--1492001 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
1491926 ATCGATACAA
1491936 TGTATCGATACTAAGGAATAT
1 TGTATCGATAC-AAGGAATAT
*
1491957 TGCATCGATAC-----A-A-
1 TGTATCGATACAAGGAATAT
1491970 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
1491990 TGTATCGATACA
1 TGTATCGATACA
1492002 TCTAGGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 15
0.68 0.04 0.28
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 12 0.33
21 10 0.28
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAGGAATAT
Found at i:1492180 original size:31 final size:30
Alignment explanation
Indices: 1492118--1492180 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
1492108 AGACATGCAT
* *
1492118 AATTCATTCACACAACATAATAAACATCAA
1 AATTCATTCACACAACAAAAAAAACATCAA
1492148 AATTCATTCA-ACAACAAAAAAAAATCATCAA
1 AATTCATTCACACAAC-AAAAAAAA-CATCAA
1492179 AA
1 AA
1492181 ATCACTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 16 0.55
31 8 0.28
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (30 bp):
AATTCATTCACACAACAAAAAAAACATCAA
Found at i:1498229 original size:19 final size:20
Alignment explanation
Indices: 1498185--1498238 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1498175 CTGCCAATCT
**
1498185 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
1498205 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1498224 CATGTATCGATACAA
1 CATGTATCGATACAA
1498239 AGCCTAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1498821 original size:1 final size:1
Alignment explanation
Indices: 1498815--1498881 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
1498805 TTCTTTTCTC
* * * * * * *
1498815 TTTTTTTTTTCTTTTTTTTTTGTTTTTTGTTTTGTTTTTTGTTTTTTGTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1498880 TT
1 TT
1498882 AAAAAAAGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.01, G:0.09, T:0.90
Consensus pattern (1 bp):
T
Found at i:1498827 original size:11 final size:11
Alignment explanation
Indices: 1498800--1498881 Score: 78
Period size: 11 Copynumber: 7.2 Consensus size: 11
1498790 CTTAAGCACG
1498800 TTCTTTTCTTTT
1 TTCTTTT-TTTT
*
1498812 CTCTTTTTTTT
1 TTCTTTTTTTT
1498823 TTCTTTTTTTT
1 TTCTTTTTTTT
*
1498834 TTGTTTTTTGTT
1 TTCTTTTTT-TT
*
1498846 TTGTTTTTTGTT
1 TTCTTTTTT-TT
1498858 TT-TTGTTTTTT
1 TTCTT-TTTTTT
1498869 TT-TTGTTTTTT
1 TTCTT-TTTTTT
1498880 TT
1 TT
1498882 AAAAAAAGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
11 39 0.60
12 26 0.40
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:1498834 original size:12 final size:12
Alignment explanation
Indices: 1498815--1498881 Score: 84
Period size: 12 Copynumber: 5.6 Consensus size: 12
1498805 TTCTTTTCTC
*
1498815 TTTTTTTTTT-C
1 TTTTTTTTTTGT
1498826 TTTTTTTTTTGT
1 TTTTTTTTTTGT
*
1498838 TTTTTGTTTTGT
1 TTTTTTTTTTGT
1498850 TTTTTGTTTTT-T
1 TTTTT-TTTTTGT
1498862 GTTTTTTTTTTGT
1 -TTTTTTTTTTGT
1498875 TTTTTTT
1 TTTTTTT
1498882 AAAAAAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
11 10 0.20
12 29 0.59
13 10 0.20
ACGTcount: A:0.00, C:0.01, G:0.09, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:1506113 original size:22 final size:22
Alignment explanation
Indices: 1506085--1506129 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1506075 GTGCCGCCCC
1506085 TATTAGGCTGTCCTGGAAGCAA
1 TATTAGGCTGTCCTGGAAGCAA
1506107 TATTAGGCTGTCCTGGAAGCAA
1 TATTAGGCTGTCCTGGAAGCAA
1506129 T
1 T
1506130 GGATCAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (22 bp):
TATTAGGCTGTCCTGGAAGCAA
Found at i:1511499 original size:78 final size:78
Alignment explanation
Indices: 1511293--1511521 Score: 291
Period size: 79 Copynumber: 2.9 Consensus size: 78
1511283 TGGAGATGAC
* * * *
1511293 AACGGGGCTGGAGTATCCCCTGACTATGGAAAATCGGTGTTCTAGAAATAAAATTAGGGTTGGAG
1 AACGGGGCTGGAGTATCCCC-GATTGTGAAAAATTGGTGTTCTAGAAATAAAATTAGGGTTGGAG
*
1511358 TATCCTCTTAAAAAT
65 TATCC-CTCAAAAAT
* * * *
1511373 AACGGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTCT-GAAAATAAAACTAGGGTTGGAG
1 AACGGGGCTGGAGTATCCCCGATTGTGAAAAATTGGTGTTCTAG-AAATAAAATTAGGGTTGGAG
1511437 TATCCCTCAAAAAT
65 TATCCCTCAAAAAT
* * *
1511451 AACGGGG-TGGAGTATCCCCGATTGTGAAAAGATTGGTGTTTTAGAAATATAATTGGGGTTGGAG
1 AACGGGGCTGGAGTATCCCCGATTGTGAAAA-ATTGGTGTTCTAGAAATAAAATTAGGGTTGGAG
1511515 TAGTCCC
65 TA-TCCC
1511522 GATTGTGAGA
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
77 22 0.17
78 44 0.34
79 46 0.35
80 18 0.14
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (78 bp):
AACGGGGCTGGAGTATCCCCGATTGTGAAAAATTGGTGTTCTAGAAATAAAATTAGGGTTGGAGT
ATCCCTCAAAAAT
Found at i:1513936 original size:13 final size:13
Alignment explanation
Indices: 1513918--1513947 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1513908 AAAATGCCTG
*
1513918 AATGTATCGATAC
1 AATGTATCAATAC
1513931 AATGTATCAATAC
1 AATGTATCAATAC
1513944 AATG
1 AATG
1513948 AACCATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:1513982 original size:20 final size:20
Alignment explanation
Indices: 1513929--1513985 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1513919 ATGTATCGAT
*
1513929 ACAATGTATCAATACAATGA
1 ACAATGTATCGATACAATGA
*
1513949 ACCATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1513969 ACAATGTATTGATACAA
1 ACAATGTATCGATACAA
1513986 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1518667 original size:13 final size:13
Alignment explanation
Indices: 1518649--1518674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1518639 TACACAAAGT
1518649 ATGTATCGATACA
1 ATGTATCGATACA
1518662 ATGTATCGATACA
1 ATGTATCGATACA
1518675 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1518672 original size:32 final size:33
Alignment explanation
Indices: 1518631--1518694 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1518621 TAGCCAAACT
**
1518631 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1518663 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1518695 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1522145 original size:15 final size:15
Alignment explanation
Indices: 1522125--1522155 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1522115 TAAAAATGTC
*
1522125 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1522140 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1522155 C
1 C
1522156 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1524253 original size:13 final size:13
Alignment explanation
Indices: 1524235--1524272 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1524225 CATTTTTCTT
1524235 TGTATCGATACAA
1 TGTATCGATACAA
*
1524248 TGTATCGATACAC
1 TGTATCGATACAA
1524261 TGTATCGATACA
1 TGTATCGATACA
1524273 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1524427 original size:20 final size:20
Alignment explanation
Indices: 1524384--1524429 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1524374 AAATCTTTTG
1524384 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1524405 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1524425 CAAAA
1 CAAAA
1524430 ACAAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1524735 original size:21 final size:20
Alignment explanation
Indices: 1524693--1524735 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1524683 GTCAGCACCA
* *
1524693 CCAGGTCGCGACTGGCACTC
1 CCAGGTCACAACTGGCACTC
*
1524713 CCAGGTCACAACTAGGCAGTC
1 CCAGGTCACAACT-GGCACTC
1524734 CC
1 CC
1524736 CACACTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.21, C:0.40, G:0.26, T:0.14
Consensus pattern (20 bp):
CCAGGTCACAACTGGCACTC
Found at i:1526815 original size:13 final size:13
Alignment explanation
Indices: 1526797--1526822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1526787 TACACAAAGT
1526797 ATGTATCGATACA
1 ATGTATCGATACA
1526810 ATGTATCGATACA
1 ATGTATCGATACA
1526823 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1526820 original size:32 final size:33
Alignment explanation
Indices: 1526779--1526842 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1526769 TAGCCAAACT
**
1526779 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1526811 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1526843 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1536817 original size:20 final size:20
Alignment explanation
Indices: 1536774--1536826 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1536764 TACCAGTTTC
* *
1536774 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATAGAAT
1536794 ATGTATCGATACAA-AGAAT
1 ATGTATCGATACAATAGAAT
*
1536813 AATGTATCGTTACA
1 -ATGTATCGATACA
1536827 TCTAGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATAGAAT
Found at i:1537558 original size:178 final size:178
Alignment explanation
Indices: 1537253--1537605 Score: 602
Period size: 178 Copynumber: 2.0 Consensus size: 178
1537243 CTTCTTTATG
* *
1537253 ATCTCTTTGTTCTGATAGGTTTTTTCGAGTGCTTTAAGCCCGTTGATTTTATCGGTGAATCTATC
1 ATCTCTTTGTTCTGATAGGTTTTTTCGAGTGCTTTAAGCCCGTTGATTATATCGGTGAACCTATC
* * * *
1537318 AGACATTTCCTTGATGGTTTCGTCCACCTTCATTTTAAATAACTCATAGTCAAGAGTGAGCATAC
66 AGACATTTCCTTGATGGTTTCATCCACCTTCATCTTAAATAACTCATAATCAAGAATGAGCATAC
1537383 TAATTTTGGACTCCTTGACTTGAGTTATGCCTTCATGTATTGTGGACC
131 TAATTTTGGACTCCTTGACTTGAGTTATGCCTTCATGTATTGTGGACC
1537431 ATCTCTTTGTTCTGATAGG-TTTTTCTGAGTGCTTTAAGCCCGTTGATTATATCGGTGAACCTAT
1 ATCTCTTTGTTCTGATAGGTTTTTTC-GAGTGCTTTAAGCCCGTTGATTATATCGGTGAACCTAT
* *
1537495 C-GAACATTTCCTTGATTGTTTCATCCACCTTCATCTTGAATAACTCATAATCAAGAATGAGCAT
65 CAG-ACATTTCCTTGATGGTTTCATCCACCTTCATCTTAAATAACTCATAATCAAGAATGAGCAT
1537559 ACTAATTTTGGACTCCTTGACTTGAGTTATGCCTTCATGTATTGTGG
129 ACTAATTTTGGACTCCTTGACTTGAGTTATGCCTTCATGTATTGTGG
1537606 CGAGTTTGTC
Statistics
Matches: 165, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
177 7 0.04
178 158 0.96
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (178 bp):
ATCTCTTTGTTCTGATAGGTTTTTTCGAGTGCTTTAAGCCCGTTGATTATATCGGTGAACCTATC
AGACATTTCCTTGATGGTTTCATCCACCTTCATCTTAAATAACTCATAATCAAGAATGAGCATAC
TAATTTTGGACTCCTTGACTTGAGTTATGCCTTCATGTATTGTGGACC
Found at i:1538408 original size:22 final size:24
Alignment explanation
Indices: 1538378--1538421 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1538368 CCTCTCAATC
*
1538378 TCTTCAAGA-ATTGTACCCCAAAT
1 TCTTCAAGAGATTGTAACCCAAAT
1538401 TCTT-AAGAGATTGTAACCCAA
1 TCTTCAAGAGATTGTAACCCAA
1538422 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTGTAACCCAAAT
Found at i:1540695 original size:87 final size:87
Alignment explanation
Indices: 1540603--1540779 Score: 273
Period size: 87 Copynumber: 2.0 Consensus size: 87
1540593 CCTATCCCCA
* *
1540603 TAATACGTCTCAAGCTTCTATTCCAGTCACAACCCAAACCACTCGCTTCCCTAAAACCAACAAAG
1 TAATACGTCTCAAGCTCCTATTCCAATCACAACCCAAACCACTCGCTTCCCTAAAACCAACAAAG
* *
1540668 ACAAAACACTAACCTAGCGGCC
66 ACAAAACACTAACCCAGCAGCC
* *
1540690 TAATACGTCTCAAGCTCCTATTCCAATCACAGCCCAAACCACTTGCTTCCCTAAAACCAACAAAG
1 TAATACGTCTCAAGCTCCTATTCCAATCACAACCCAAACCACTCGCTTCCCTAAAACCAACAAAG
* **
1540755 ATAAAATGCTAACCCAGCAGCC
66 ACAAAACACTAACCCAGCAGCC
1540777 TAA
1 TAA
1540780 AGAACCAACC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.37, C:0.34, G:0.09, T:0.19
Consensus pattern (87 bp):
TAATACGTCTCAAGCTCCTATTCCAATCACAACCCAAACCACTCGCTTCCCTAAAACCAACAAAG
ACAAAACACTAACCCAGCAGCC
Found at i:1544904 original size:159 final size:160
Alignment explanation
Indices: 1544692--1545027 Score: 430
Period size: 159 Copynumber: 2.1 Consensus size: 160
1544682 TTATCTTTGA
* *
1544692 GGATACTCCAACCCTACCATCTTTGAAGGGATACTCTTACCCTGTTTTTACTTTCAAAACA-CTG
1 GGATACTCCAACCCTACAATCTTTGAAGGGATACTCTAACCCTGTTTTTACTTTCAAAACATC-G
* * * **
1544756 AATATTTCATTTCTAGGGATACTTCAATCCTTCC-TCTCTAAGAGGATACTCCAA-CCCTGTTTT
65 AATATTTCATGTCTAGGGATACTCCAACCCCACCATCTCTAAGAGGATACTCCAATCCC-GTTTT
* *
1544819 TACTTCCAAAATATCGAATTTTTCATCTCCAG
129 TACTCCCAAAACATCGAATTTTTCATCTCCAG
* *
1544851 GGATATTCCAATCCC-ACAATCTTTGAGGGGATACTCTAA-CCTCGTTTTTACTTTCAAAACATC
1 GGATACTCCAA-CCCTACAATCTTTGAAGGGATACTCTAACCCT-GTTTTTACTTTCAAAACATC
* * * * *
1544914 GAATTTTTCATGTCTGGGGATAGTCCAACCCCACCATCTCTGAGGGGATACTCCAATCCCGTTTT
64 GAATATTTCATGTCTAGGGATACTCCAACCCCACCATCTCTAAGAGGATACTCCAATCCCGTTTT
* *
1544979 TACTCCCAAAACATTGAATTTTTCATCTCTAG
129 TACTCCCAAAACATCGAATTTTTCATCTCCAG
*
1545011 GGATACTCTAACCCTAC
1 GGATACTCCAACCCTAC
1545028 CATTTCCAAG
Statistics
Matches: 151, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
158 3 0.02
159 79 0.52
160 66 0.44
161 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (160 bp):
GGATACTCCAACCCTACAATCTTTGAAGGGATACTCTAACCCTGTTTTTACTTTCAAAACATCGA
ATATTTCATGTCTAGGGATACTCCAACCCCACCATCTCTAAGAGGATACTCCAATCCCGTTTTTA
CTCCCAAAACATCGAATTTTTCATCTCCAG
Found at i:1545061 original size:80 final size:80
Alignment explanation
Indices: 1544692--1545053 Score: 372
Period size: 80 Copynumber: 4.5 Consensus size: 80
1544682 TTATCTTTGA
* ** * *
1544692 GGATACTCCAACCCTACCATCTTTGAA-GGGATACTCTTACCCTGTTTTTACTTTCAAAACA-CT
1 GGATACTCCAACCCTACCATCTCT-AAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATC-
* *
1544755 GAATATTTCATTTCTAG
64 GAATTTTTCATCTCTAG
* * * * * *
1544772 GGATACTTCAATCCTTCC-TCTCTAAGAGGATACTCCAACCCTGTTTTTACTTCCAAAATATCGA
1 GGATACTCCAACCCTACCATCTCTAAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATCGA
*
1544836 ATTTTTCATCTCCAG
66 ATTTTTCATCTCTAG
* * * * * * *
1544851 GGATATTCCAATCCC-ACAATCTTTGAGGGGATACTCTAACCTCGTTTTTACTTTCAAAACATCG
1 GGATACTCCAA-CCCTACCATCTCTAAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATCG
* *
1544915 AATTTTTCATGTCTGG
65 AATTTTTCATCTCTAG
* * * * * *
1544931 GGATAGTCCAACCCCACCATCTCTGAGGGGATACTCCAATCCCGTTTTTACTCCCAAAACATTGA
1 GGATACTCCAACCCTACCATCTCTAAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATCGA
1544996 ATTTTTCATCTCTAG
66 ATTTTTCATCTCTAG
* * * *
1545011 GGATACTCTAACCCTACCATTTCCAAGGGGGTACTCCAACCCC
1 GGATACTCCAACCCTACCATCTCTAAGGGGATACTCCAACCCC
1545054 ACTTTTACAC
Statistics
Matches: 230, Mismatches: 47, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
78 2 0.01
79 60 0.26
80 168 0.73
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.33
Consensus pattern (80 bp):
GGATACTCCAACCCTACCATCTCTAAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATCGA
ATTTTTCATCTCTAG
Found at i:1549580 original size:79 final size:79
Alignment explanation
Indices: 1549449--1549969 Score: 436
Period size: 79 Copynumber: 6.6 Consensus size: 79
1549439 TCATTGATAT
* * * * * **
1549449 TTTTATTTCTAAAACACTAATTTTCCACCATC-AAGGATACTCCAACCTTGTTATTTTTGAGGGG
1 TTTTATTCCTAAAACAATGATTTTCCACCATCGGA-GATACTCCAACCCTGTTATTTCCGAGGGG
1549513 ATATTCCAACCCTAG
65 ATATTCCAACCCTAG
* *
1549528 TTTTATTCCTAAAACAATGATTTTTCACCATCGTAGATACTCCAACCCTGTTATTTCCGAGGGGA
1 TTTTATTCCTAAAACAATGATTTTCCACCATCGGAGATACTCCAACCCTGTTATTTCCGAGGGGA
1549593 TACTT-CAATCCC-AG
66 TA-TTCCAA-CCCTAG
* * * * *
1549607 TTTTTTTCCTAAAAC-ATCGATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGG
1 TTTTATTCCTAAAACAAT-GATTTTCCACCATCGGAGATACTCCAACCCTGTTATTTCCGAGGGG
* *
1549671 ATAATCCAACCCCAG
65 ATATTCCAACCCTAG
* * *
1549686 TTTTATTCCTAAAATAATGATATTT-CACCATCGGAGATACTCCAAACCC-ATTATTTCCGAAGG
1 TTTTATTCCTAAAACAATGAT-TTTCCACCATCGGAGATACTCC-AACCCTGTTATTTCCGAGGG
*
1549749 GATACTT-CAA-CCTCAA
64 GATA-TTCCAACCCT-AG
* * * * * * * * * *
1549765 TTTTATTCTTAAAA-TATCGATTTTACACTATC-GAGGATACCCCAATCTTGTTATTTTCGAAGC
1 TTTTATTCCTAAAACAAT-GATTTTCCACCATCGGA-GATACTCCAACCCTGTTATTTCCGAGGG
* * * *
1549828 AATACTCCAACCTTAA
64 GATATTCCAACCCTAG
* * * * * * * *
1549844 TTTTATTCCTAAAACACTAATTTTCCACCTTTGGGGATACTTCAACTCTGTTATTTTCGAGGGGA
1 TTTTATTCCTAAAACAATGATTTTCCACCATCGGAGATACTCCAACCCTGTTATTTCCGAGGGGA
* *
1549909 TACTCTAACCCTAG
66 TATTCCAACCCTAG
** *
1549923 TTTTATTCCTAAAAC-ATCGATTTT-CACCATCAAAGATACTTCAACCC
1 TTTTATTCCTAAAACAAT-GATTTTCCACCATCGGAGATACTCCAACCC
1549970 CGATTTTATT
Statistics
Matches: 356, Mismatches: 66, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
78 37 0.10
79 298 0.84
80 21 0.06
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (79 bp):
TTTTATTCCTAAAACAATGATTTTCCACCATCGGAGATACTCCAACCCTGTTATTTCCGAGGGGA
TATTCCAACCCTAG
Found at i:1549745 original size:158 final size:154
Alignment explanation
Indices: 1549449--1549968 Score: 551
Period size: 158 Copynumber: 3.3 Consensus size: 154
1549439 TCATTGATAT
* * *
1549449 TTTTATTTCTAAAACA-CTAATTTTCCACCATCAAGGATACTCCAACCTTGTTATTTTTGAGGGG
1 TTTTATTCCTAAAACATC-GATTTTCCACCATCGAGGATACTCCAACCTTGTTA-TTTTGAGGGG
* *
1549513 ATATTCCAACCCTAGTTTTATTCCTAAAACAATGATTTTTCACCATCGTAGATACTCCAACCCTG
64 ATAATCCAACCCTAGTTTTATTCCTAAAACAATGA-TTTTCACCATCGGAGATACTCCAACCC-G
1549578 TTATTTCCGAGGGGATACTTCAATCCCAG
127 TTATTTCCGAGGGGATACTTCAA-CCCAG
* * * **
1549607 TTTTTTTCCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
1 TTTTATTCCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCTTGTTATTT-TGAGGGGA
* * *
1549672 TAATCCAACCCCAGTTTTATTCCTAAAATAATGATATTTCACCATCGGAGATACTCCAAACCCAT
65 TAATCCAACCCTAGTTTTATTCCTAAAACAATGAT-TTTCACCATCGGAGATACTCC-AACCCGT
* *
1549737 TATTTCCGAAGGGATACTTCAACCTCAA
128 TATTTCCGAGGGGATACTTCAACC-CAG
* * * * * * * **
1549765 TTTTATTCTTAAAATATCGATTTTACACTATCGAGGATACCCCAATCTTGTTATTTTCGAAGCAA
1 TTTTATTCCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCTTGTTATTTT-GAGGGGA
* * * * * * * * * *
1549830 TACTCCAACCTTAATTTTATTCCTAAAACACTAATTTTCCACCTTTGGGGATACTTCAACTCTGT
65 TAATCCAACCCTAGTTTTATTCCTAAAACAATGATTTT-CACCATCGGAGATACTCCAAC-CCGT
*
1549895 TATTTTCGAGGGGATAC-TCTAACCCTAG
128 TATTTCCGAGGGGATACTTC-AACCC-AG
* * *
1549923 TTTTATTCCTAAAACATCGATTTT-CACCATCAAAGATACTTCAACC
1 TTTTATTCCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACC
1549969 CCGATTTTAT
Statistics
Matches: 299, Mismatches: 53, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
157 32 0.11
158 261 0.87
159 6 0.02
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (154 bp):
TTTTATTCCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCTTGTTATTTTGAGGGGAT
AATCCAACCCTAGTTTTATTCCTAAAACAATGATTTTCACCATCGGAGATACTCCAACCCGTTAT
TTCCGAGGGGATACTTCAACCCAG
Found at i:1549969 original size:50 final size:51
Alignment explanation
Indices: 1549907--1550020 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 51
1549897 TTTTCGAGGG
1549907 GATAC-TCTAACCCTAG-TTTTATTCCTAAAACATCGA-TTTTCACCATCAAA
1 GATACTTC-AACCC-AGATTTTATTCCTAAAACATCGATTTTTCACCATCAAA
* * * *
1549957 GATACTTCAACCCCGATTTTATTCTTAAAACATCGATTTTTCACCATCGAG
1 GATACTTCAACCCAGATTTTATTCCTAAAACATCGATTTTTCACCATCAAA
*
1550008 GATACTCCAACCC
1 GATACTTCAACCC
1550021 CATTAATTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 29 0.52
51 26 0.46
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (51 bp):
GATACTTCAACCCAGATTTTATTCCTAAAACATCGATTTTTCACCATCAAA
Found at i:1549980 original size:129 final size:130
Alignment explanation
Indices: 1549829--1550098 Score: 312
Period size: 129 Copynumber: 2.1 Consensus size: 130
1549819 TTTCGAAGCA
*** * * * * * *
1549829 ATACTCCAACCTTAATTTTATTCCTAAAACA-CTAATTTTCCACCTTTGGGGATACTTCAACTCT
1 ATACTCCAACCCCGATTTTATTCCTAAAACATC-AATTTTCCACCATCGAGGATACTCCAACCCC
* * * * *
1549893 GTT-ATTTTCGAGGGGATACTCTAACCCTAGTTTTATTCCTAAAACATCGATTTT-CACCATCAA
65 ATTAATTCT-GAGCGGATACTCTAACCCCAATTTTATTCCTAAAACATCGATTTTCCACCATCAA
1549956 AG
129 AG
* * * *
1549958 ATACTTCAACCCCGATTTTATTCTTAAAACATCGATTTTTCACCATCGAGGATACTCCAACCCCA
1 ATACTCCAACCCCGATTTTATTCCTAAAACATCAATTTTCCACCATCGAGGATACTCCAACCCCA
* * *
1550023 TTAATTCTGAGCGGATACTCTAACCCCAATTTTATTCTTAAAACATCGATTTTCCACTATCGAAG
66 TTAATTCTGAGCGGATACTCTAACCCCAATTTTATTCCTAAAACATCGATTTTCCACCATCAAAG
1550088 ATACTCCAACC
1 ATACTCCAACC
1550099 TTGTTATTTT
Statistics
Matches: 116, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
129 92 0.79
130 24 0.21
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.34
Consensus pattern (130 bp):
ATACTCCAACCCCGATTTTATTCCTAAAACATCAATTTTCCACCATCGAGGATACTCCAACCCCA
TTAATTCTGAGCGGATACTCTAACCCCAATTTTATTCCTAAAACATCGATTTTCCACCATCAAAG
Found at i:1550019 original size:51 final size:51
Alignment explanation
Indices: 1549906--1550021 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
1549896 ATTTTCGAGG
* *
1549906 GGATACTCTAA-CCCTAGTTTTATTCCTAAAACATCGATTTTCACCATCAA
1 GGATACTCCAACCCCGAGTTTTATTCCTAAAACATCGATTTTCACCATCAA
* * * *
1549956 AGATACTTCAACCCCGA-TTTTATTCTTAAAACATCGATTTTTCACCATCGA
1 GGATACTCCAACCCCGAGTTTTATTCCTAAAACATCGA-TTTTCACCATCAA
1550007 GGATACTCCAACCCC
1 GGATACTCCAACCCC
1550022 ATTAATTCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 27 0.48
51 29 0.52
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGAGTTTTATTCCTAAAACATCGATTTTCACCATCAA
Found at i:1552197 original size:16 final size:16
Alignment explanation
Indices: 1552178--1552215 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1552168 ATTGAGGTGC
1552178 TTATTTATTCATTTAA
1 TTATTTATTCATTTAA
*
1552194 TTATTTATTTATTTAA
1 TTATTTATTCATTTAA
1552210 TTATTT
1 TTATTT
1552216 TGTTTTGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTATTCATTTAA
Found at i:1552199 original size:8 final size:8
Alignment explanation
Indices: 1552178--1552215 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1552168 ATTGAGGTGC
1552178 TTATTT-A
1 TTATTTAA
1552185 TTCATTTAA
1 TT-ATTTAA
*
1552194 TTATTTAT
1 TTATTTAA
1552202 TTATTTAA
1 TTATTTAA
1552210 TTATTT
1 TTATTT
1552216 TGTTTTGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 2 0.07
8 22 0.81
9 3 0.11
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (8 bp):
TTATTTAA
Found at i:1554516 original size:20 final size:20
Alignment explanation
Indices: 1554491--1554545 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1554481 ATTGGGTTCA
* *
1554491 ATGTATCGATACATTTTACC
1 ATGTATCGATACAATTCACC
* *
1554511 ATGTATCAATACAATTCATC
1 ATGTATCGATACAATTCACC
1554531 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1554546 GTATCAATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:1562539 original size:13 final size:13
Alignment explanation
Indices: 1562521--1562546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1562511 CAATTTTTTG
1562521 TGTATCGATACAT
1 TGTATCGATACAT
1562534 TGTATCGATACAT
1 TGTATCGATACAT
1562547 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1562631 original size:20 final size:20
Alignment explanation
Indices: 1562606--1562678 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1562596 CATCCTTTTT
1562606 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1562626 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1562647 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1562667 ATGTATCGATAC
1 ATGTATCGATAC
1562679 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1562651 original size:21 final size:21
Alignment explanation
Indices: 1562585--1562661 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1562575 CTGCCAAGAA
*
1562585 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1562606 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1562626 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1562647 ATGTATCGATACATT
1 ATGTATCGATACATT
1562662 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1562651 original size:41 final size:41
Alignment explanation
Indices: 1562585--1562678 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1562575 CTGCCAAGAA
1562585 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1562626 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1562667 ATGTATCGATAC
1 ATGTATCGATAC
1562679 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1563287 original size:48 final size:48
Alignment explanation
Indices: 1563232--1563327 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
1563222 AAATTTTACG
1563232 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1563280 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1563328 TTATCTCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:1565186 original size:13 final size:13
Alignment explanation
Indices: 1565168--1565206 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1565158 ATAATCACCC
*
1565168 TGTATCGATACAG
1 TGTATCGATACAA
1565181 TGTATCGATACAA
1 TGTATCGATACAA
*
1565194 TGTATCAATACAA
1 TGTATCGATACAA
1565207 GGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1571380 original size:13 final size:13
Alignment explanation
Indices: 1571362--1571387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1571352 CAATTTTTTG
1571362 TGTATCGATACAT
1 TGTATCGATACAT
1571375 TGTATCGATACAT
1 TGTATCGATACAT
1571388 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1571472 original size:20 final size:20
Alignment explanation
Indices: 1571447--1571519 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1571437 CATCCTTTTT
1571447 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1571467 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1571488 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1571508 ATGTATCGATAC
1 ATGTATCGATAC
1571520 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1571492 original size:21 final size:21
Alignment explanation
Indices: 1571426--1571502 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1571416 CTGCCAAGAA
*
1571426 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1571447 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1571467 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1571488 ATGTATCGATACATT
1 ATGTATCGATACATT
1571503 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1571492 original size:41 final size:41
Alignment explanation
Indices: 1571426--1571519 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1571416 CTGCCAAGAA
1571426 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1571467 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1571508 ATGTATCGATAC
1 ATGTATCGATAC
1571520 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1573471 original size:19 final size:20
Alignment explanation
Indices: 1573447--1573493 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
1573437 CTTTTTAAGG
*
1573447 TGTATCGATACTATG-AACA
1 TGTATCGATACTAAGCAACA
*
1573466 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAACA
1573486 TGTATCGA
1 TGTATCGA
1573494 AAGATCTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCGATACTAAGCAACA
Found at i:1575105 original size:43 final size:43
Alignment explanation
Indices: 1575057--1575142 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
1575047 ACGAGCGGTG
1575057 AAGATTTGGACAAGTACTAGTCTTTAGAAAAACATCTTCGAGC
1 AAGATTTGGACAAGTACTAGTCTTTAGAAAAACATCTTCGAGC
1575100 AAGATTTGGACAAGTACTAGTCTTTAGAAAAACATCTTCGAGC
1 AAGATTTGGACAAGTACTAGTCTTTAGAAAAACATCTTCGAGC
1575143 TATCGAGGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (43 bp):
AAGATTTGGACAAGTACTAGTCTTTAGAAAAACATCTTCGAGC
Found at i:1579068 original size:16 final size:15
Alignment explanation
Indices: 1579039--1579075 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
1579029 ACTTACACAC
1579039 TTTTTTCTACATATT
1 TTTTTTCTACATATT
*
1579054 TTTTCTTCTATATATT
1 TTTT-TTCTACATATT
1579070 TTTTTT
1 TTTTTT
1579076 TTCACATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTCTACATATT
Found at i:1579817 original size:13 final size:13
Alignment explanation
Indices: 1579799--1579823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1579789 CATAAAGTGT
1579799 TGTATCGATACAA
1 TGTATCGATACAA
1579812 TGTATCGATACA
1 TGTATCGATACA
1579824 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1579821 original size:33 final size:33
Alignment explanation
Indices: 1579779--1579845 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1579769 TTCAACGATT
1579779 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1579812 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1579845 T
1 T
1579846 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1579904 original size:13 final size:13
Alignment explanation
Indices: 1579886--1579910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1579876 ATTACTCAAA
1579886 TGTATCGATACAT
1 TGTATCGATACAT
1579899 TGTATCGATACA
1 TGTATCGATACA
1579911 CTAATCTTTG
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):
TGTATCGATACAT
Found at i:1579975 original size:52 final size:52
Alignment explanation
Indices: 1579919--1580047 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1579909 CACTAATCTT
* *
1579919 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1579971 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1580023 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1580048 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1584171 original size:10 final size:10
Alignment explanation
Indices: 1584156--1584182 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1584146 TGCTAACTAA
1584156 GTTTTTGTTT
1 GTTTTTGTTT
1584166 GTTTTTGTTT
1 GTTTTTGTTT
1584176 GTTTTTG
1 GTTTTTG
1584183 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:1860487 original size:1 final size:1
Alignment explanation
Indices: 1860483--1860624 Score: 212
Period size: 1 Copynumber: 142.0 Consensus size: 1
1860473 TTTGGGGTGT
* * * *
1860483 GGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGGGGGGGGTGTGGGGGTGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* ** *
1860548 GGTGGGTAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1860613 GGGGGGGGGGGG
1 GGGGGGGGGGGG
1860625 TCTCATGAGT
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 126 1.00
ACGTcount: A:0.01, C:0.00, G:0.94, T:0.05
Consensus pattern (1 bp):
G
Found at i:1863028 original size:30 final size:30
Alignment explanation
Indices: 1862994--1863117 Score: 130
Period size: 30 Copynumber: 4.1 Consensus size: 30
1862984 TAGCCTTTTT
*
1862994 AAAGTCCACAAC-CTAGTGGCAT-TCTTTCTC
1 AAAGTCCACGACTC-AGTGGCATCTC-TTCTC
* *
1863024 AAAGTCTACGAC-CTAGTGGCACCT-TTCTTC
1 AAAGTCCACGACTC-AGTGGCATCTCTTC-TC
* *
1863054 AAAGTTCACGACTCAGTGGCATCTCTTCTT
1 AAAGTCCACGACTCAGTGGCATCTCTTCTC
*
1863084 AAAGTCCACGACTCAGTGGCATTTCTTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCTC
1863114 AAAG
1 AAAG
1863118 GGCATCTCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.04
30 72 0.90
31 5 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTC
Found at i:1863127 original size:17 final size:17
Alignment explanation
Indices: 1863101--1863134 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1863091 ACGACTCAGT
*
1863101 GGCATTTCTTCTCAAAG
1 GGCATCTCTTCTCAAAG
1863118 GGCATCTCTTCTCAAAG
1 GGCATCTCTTCTCAAAG
1863135 TCCACGACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (17 bp):
GGCATCTCTTCTCAAAG
Found at i:1863140 original size:47 final size:47
Alignment explanation
Indices: 1863071--1863164 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
1863061 ACGACTCAGT
* * * *
1863071 GGCATCTCTTCTTAAAGTCCACGACTCAGTGGCATTTCTTCTCAAAG
1 GGCATCTCTTCTCAAAGTCCACGACTCAATGGCATCTCTTCTAAAAG
*
1863118 GGCATCTCTTCTCAAAGTCCACGACTCAATTGCATCTCTTCTAAAAG
1 GGCATCTCTTCTCAAAGTCCACGACTCAATGGCATCTCTTCTAAAAG
1863165 TCTACGACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (47 bp):
GGCATCTCTTCTCAAAGTCCACGACTCAATGGCATCTCTTCTAAAAG
Found at i:1863183 original size:30 final size:30
Alignment explanation
Indices: 1863118--1863193 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
1863108 CTTCTCAAAG
*
1863118 GGCATCTCTTCTCAAAGTCCACGACTCAAT
1 GGCATCTCTTCTAAAAGTCCACGACTCAAT
* * * *
1863148 TGCATCTCTTCTAAAAGTCTACGACTTAGT
1 GGCATCTCTTCTAAAAGTCCACGACTCAAT
*
1863178 GGCATCTTTTCTAAAA
1 GGCATCTCTTCTAAAA
1863194 ATCCCTGACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (30 bp):
GGCATCTCTTCTAAAAGTCCACGACTCAAT
Found at i:1863250 original size:30 final size:30
Alignment explanation
Indices: 1863214--1863291 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
1863204 CTATGGTATA
* *
1863214 TTTTTAAAGTCCACAACTTTGTGGTACCCT
1 TTTTTAAAGTCCACAACTTTATGGCACCCT
1863244 TTTTTAAAGTCCACAACTTTATGGCACCCT
1 TTTTTAAAGTCCACAACTTTATGGCACCCT
*
1863274 TTTTTAAAGTCCATAACT
1 TTTTTAAAGTCCACAACT
1863292 GCGTGACGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTTTAAAGTCCACAACTTTATGGCACCCT
Found at i:1863317 original size:29 final size:30
Alignment explanation
Indices: 1863274--1863451 Score: 131
Period size: 29 Copynumber: 6.1 Consensus size: 30
1863264 ATGGCACCCT
* * *
1863274 TTTTTAAAGTCCATAACTGCGTGACGCCTC
1 TTTTTAAAGTTCATAACTCCGTGACACCTC
* *
1863304 TTTTT-AAGTTCATAACTCCGTGGCATCCTTT
1 TTTTTAAAGTTCATAACTCCGTGACA-CC-TC
1863335 TTTTTAAAGTTCATAACTCCGTGACACC-C
1 TTTTTAAAGTTCATAACTCCGTGACACCTC
* * * **
1863364 TTTTCAAAGTCCACAACTTTGTGACACCT-
1 TTTTTAAAGTTCATAACTCCGTGACACCTC
* *
1863393 TTTTT-AAG-TCTACAACTCCGTGGCA---C
1 TTTTTAAAGTTC-ATAACTCCGTGACACCTC
* **
1863419 ATTTTAAAGCCCATAACTCCGTGACACCT-
1 TTTTTAAAGTTCATAACTCCGTGACACCTC
1863448 TTTT
1 TTTT
1863452 AGAGCTCAGA
Statistics
Matches: 115, Mismatches: 22, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
26 4 0.03
27 16 0.14
28 15 0.13
29 46 0.40
30 7 0.06
31 8 0.07
32 19 0.17
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (30 bp):
TTTTTAAAGTTCATAACTCCGTGACACCTC
Found at i:1863349 original size:32 final size:32
Alignment explanation
Indices: 1863273--1863367 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 32
1863263 TATGGCACCC
* * *
1863273 TTTTTTAAAGTCCATAACTGCGTGAC-GCC-T
1 TTTTTTAAAGTTCATAACTCCGTGACACCCTT
* * *
1863303 CTTTTT-AAGTTCATAACTCCGTGGCATCCTT
1 TTTTTTAAAGTTCATAACTCCGTGACACCCTT
1863334 TTTTTTAAAGTTCATAACTCCGTGACACCCTT
1 TTTTTTAAAGTTCATAACTCCGTGACACCCTT
1863366 TT
1 TT
1863368 CAAAGTCCAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.30
30 7 0.13
31 6 0.11
32 25 0.46
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (32 bp):
TTTTTTAAAGTTCATAACTCCGTGACACCCTT
Found at i:1863394 original size:28 final size:27
Alignment explanation
Indices: 1863336--1863450 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
1863326 GCATCCTTTT
* *
1863336 TTTTAAAGTTCATAACTCCGTGACACCC
1 TTTTAAAGTCCACAACTCCGTGACA-CC
**
1863364 TTTTCAAAGTCCACAACTTTGTGACACC
1 TTTT-AAAGTCCACAACTCCGTGACACC
* * * *
1863392 TTTTTTAAGTCTACAACTCCGTGGCACA
1 -TTTTAAAGTCCACAACTCCGTGACACC
* *
1863420 TTTTAAAGCCCATAACTCCGTGACACC
1 TTTTAAAGTCCACAACTCCGTGACACC
1863447 TTTT
1 TTTT
1863451 TAGAGCTCAG
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
27 25 0.36
28 23 0.33
29 21 0.30
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (27 bp):
TTTTAAAGTCCACAACTCCGTGACACC
Found at i:1863397 original size:61 final size:59
Alignment explanation
Indices: 1863245--1863397 Score: 173
Period size: 61 Copynumber: 2.6 Consensus size: 59
1863235 TGGTACCCTT
* * * *
1863245 TTTTAAAGTCCACAACTTTATGGCACC-CTTTTTTAAAGTCCATAACTGCGTGACGCCTC
1 TTTTAAAGTCCACAACTTTGTGGCACCTTTTTTTTAAAGTCCATAACTCCGTGACACC-C
* * * ** *
1863304 TTTTTAAGTTCATAACTCCGTGGCATCCTTTTTTTTAAAGTTCATAACTCCGTGACACCC
1 TTTTAAAGTCCACAACTTTGTGGCA-CCTTTTTTTTAAAGTCCATAACTCCGTGACACCC
*
1863364 TTTTCAAAGTCCACAACTTTGTGACACCTTTTTT
1 TTTT-AAAGTCCACAACTTTGTGGCACCTTTTTT
1863398 AAGTCTACAA
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
59 19 0.25
60 15 0.20
61 41 0.55
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (59 bp):
TTTTAAAGTCCACAACTTTGTGGCACCTTTTTTTTAAAGTCCATAACTCCGTGACACCC
Found at i:1863436 original size:27 final size:28
Alignment explanation
Indices: 1863406--1863519 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 28
1863396 TTAAGTCTAC
1863406 AACTCCGTGGCACATTTT-AAAGCCCAT
1 AACTCCGTGGCACATTTTCAAAGCCCAT
* * * * * *
1863433 AACTCCGTGACACCTTTTTAGAGCTCAG
1 AACTCCGTGGCACATTTTCAAAGCCCAT
* *
1863461 AACTCTGTGGCACATTTTTCAAAGCCCAC
1 AACTCCGTGGCACA-TTTTCAAAGCCCAT
* **
1863490 AAGTTAGTGGCAC-TCTTTCAAAGCCCAT
1 AACTCCGTGGCACAT-TTTCAAAGCCCAT
1863518 AA
1 AA
1863520 GTGAGTGTTA
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
27 17 0.25
28 31 0.46
29 20 0.29
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
AACTCCGTGGCACATTTTCAAAGCCCAT
Found at i:1863464 original size:28 final size:27
Alignment explanation
Indices: 1863274--1863484 Score: 109
Period size: 28 Copynumber: 7.3 Consensus size: 27
1863264 ATGGCACCCT
* * *
1863274 TTTTTAAAGTCCATAACTGCGTGACGCC
1 TTTTTAAAGT-CACAACTCCGTGACACC
* * *
1863302 TCTTTTTAAGTTCATAACTCCGTGGCATCC
1 T-TTTTAAAG-TCACAACTCCGTGACA-CC
*
1863332 TTTTTTTTAAAGTTCATAACTCCGTGACACCC
1 ---TTTTTAAAG-TCACAACTCCGTGACA-CC
* **
1863364 TTTTCAAAGTCCACAACTTTGTGACACC
1 TTTTTAAAGT-CACAACTCCGTGACACC
* *
1863392 TTTTTTAAGTCTACAACTCCGTGGCA-C
1 TTTTTAAAGTC-ACAACTCCGTGACACC
* * *
1863419 ATTTTAAAGCCCATAACTCCGTGACACC
1 TTTTTAAAG-TCACAACTCCGTGACACC
* * * * *
1863447 TTTTTAGAGCTCAGAACTCTGTGGCACA
1 TTTTTAAAG-TCACAACTCCGTGACACC
1863475 TTTTTCAAAG
1 TTTTT-AAAG
1863485 CCCACAAGTT
Statistics
Matches: 143, Mismatches: 29, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
27 21 0.15
28 51 0.36
29 42 0.29
30 3 0.02
32 25 0.17
33 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (27 bp):
TTTTTAAAGTCACAACTCCGTGACACC
Found at i:1863499 original size:29 final size:29
Alignment explanation
Indices: 1863467--1863852 Score: 247
Period size: 29 Copynumber: 13.2 Consensus size: 29
1863457 TCAGAACTCT
1863467 GTGGCACATTTTTCAAAGCCCACAAGTTA
1 GTGGCACATTTTTCAAAGCCCACAAGTTA
* * *
1863496 GTGGCAC-TCTTTCAAAGCCCATAAGTGA
1 GTGGCACATTTTTCAAAGCCCACAAGTTA
** *
1863524 GT-G-TTATCCTTTCAAAGCCCACAAGTTA
1 GTGGCACAT-TTTTCAAAGCCCACAAGTTA
** * *
1863552 GTGGTGCCTTTTTCAAAAGCCTACAAGTTA
1 GTGGCACATTTTTC-AAAGCCCACAAGTTA
* *
1863582 GTGGCA-ATGTTTTCAAAAGCCCACATAATTCG
1 GTGGCACAT-TTTTC-AAAGCCCACA-AGTT-A
* * *
1863614 GTGGTAACCTTTTT-AAAGCCTACAAGTTA
1 GTGG-CACATTTTTCAAAGCCCACAAGTTA
** * *
1863643 GTGGCATTTTTTTTAAAGCCCACAAGTCA
1 GTGGCACATTTTTCAAAGCCCACAAGTTA
* **
1863672 GTGACATTTTTTTCAAAGCCCACATAAGTTA
1 GTGGCACATTTTTCAAAGCCCAC--AAGTTA
* * *
1863703 GTGG--CATTCCCTTTGAAAGCCTATAAGTTA
1 GTGGCACATT---TTTCAAAGCCCACAAGTTA
* *
1863733 GTGGCA-ATCTTTCAAAGCCCACAAGTAA
1 GTGGCACATTTTTCAAAGCCCACAAGTTA
* * *
1863761 ATGGCATCCTTCTT-AAAGCCCACAAGTTA
1 GTGGCA-CATTTTTCAAAGCCCACAAGTTA
*
1863790 GTGGCAC-TATTTT-AAAGCCCACAAGTCA
1 GTGGCACAT-TTTTCAAAGCCCACAAGTTA
* * *
1863818 GTGGCATCCTTCTT-AAAGCCCACAAGTTG
1 GTGGCA-CATTTTTCAAAGCCCACAAGTTA
1863847 GTGGCA
1 GTGGCA
1863853 ACCCTTTCAA
Statistics
Matches: 281, Mismatches: 53, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.01
28 90 0.32
29 95 0.34
30 51 0.18
31 22 0.08
32 14 0.05
33 5 0.02
34 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (29 bp):
GTGGCACATTTTTCAAAGCCCACAAGTTA
Found at i:1863578 original size:30 final size:29
Alignment explanation
Indices: 1863475--1863850 Score: 138
Period size: 28 Copynumber: 12.9 Consensus size: 29
1863465 CTGTGGCACA
1863475 TTTTTCAAAGCCCACAAGTTAGT-G-GCAC
1 TTTTTCAAAGCCCACAAGTTAGTGGTGC-C
* * * * *
1863503 TCTTTCAAAGCCCATAAGTGAGTGTTATCC
1 TTTTTCAAAGCCCACAAGTTAGTGGT-GCC
1863533 --TTTCAAAGCCCACAAGTTAGTGGTGCC
1 TTTTTCAAAGCCCACAAGTTAGTGGTGCC
* *
1863560 TTTTTCAAAAGCCTACAAGTTAGT-G-GCAA
1 TTTTTC-AAAGCCCACAAGTTAGTGGTGC-C
* * *
1863589 TGTTTTCAAAAGCCCACATAATTCGGTGGTAACC
1 T-TTTTC-AAAGCCCACA-AGTT-AGTGGT-GCC
* ****
1863623 TTTTT-AAAGCCTACAAGTTAGTGGCATT
1 TTTTTCAAAGCCCACAAGTTAGTGGTGCC
* * *****
1863651 TTTTTTAAAGCCCACAAGTCAGTGACATT
1 TTTTTCAAAGCCCACAAGTTAGTGGTGCC
*
1863680 TTTTTCAAAGCCCACATAAGTTAGTGGCATTCC
1 TTTTTCAAAGCCCAC--AAGTTAGTGG--TGCC
* * * * *
1863713 -CTTTGAAAGCCTATAAGTTAGT-G-GCAA
1 TTTTTCAAAGCCCACAAGTTAGTGGTGC-C
* * *
1863740 TCTTTCAAAGCCCACAAGTAAATGGCAT-CC
1 TTTTTCAAAGCCCACAAGTTAGTGG--TGCC
*
1863770 TTCTT-AAAGCCCACAAGTTAGT-G-GCAC
1 TTTTTCAAAGCCCACAAGTTAGTGGTGC-C
*
1863797 TATTTT-AAAGCCCACAAGTCAGTGGCAT-CC
1 T-TTTTCAAAGCCCACAAGTTAGTGG--TGCC
* *
1863827 TTCTT-AAAGCCCACAAGTTGGTGG
1 TTTTTCAAAGCCCACAAGTTAGTGG
1863851 CAACCCTTTC
Statistics
Matches: 264, Mismatches: 53, Indels: 61
0.70 0.14 0.16
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 86 0.33
29 82 0.31
30 48 0.18
31 23 0.09
32 12 0.05
33 5 0.02
34 1 0.00
35 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (29 bp):
TTTTTCAAAGCCCACAAGTTAGTGGTGCC
Found at i:1863779 original size:89 final size:88
Alignment explanation
Indices: 1863628--1863844 Score: 219
Period size: 89 Copynumber: 2.5 Consensus size: 88
1863618 TAACCTTTTT
* * * * * * *
1863628 AAAGCCTACAAGTTAGTGGCATTTTTTTTAAAGCCCACAAGTCAGTGACATTTTTTTCAAAGCCC
1 AAAGCCTACAAGTTAGTGGCATATCTTTCAAAGCCCACAAGTAAATGACATCTTCTTCAAAGCCC
1863693 ACATAAGTTAGTGGCATTCCCTTTG
66 AC--AAGTTAGTGGCATTCCCTTTG
* *
1863718 AAAGCCTATAAGTTAGTGGCA-ATCTTTCAAAGCCCACAAGTAAATGGCATCCTTCTT-AAAGCC
1 AAAGCCTACAAGTTAGTGGCATATCTTTCAAAGCCCACAAGTAAATGACAT-CTTCTTCAAAGCC
** *
1863781 CACAAGTTAGTGGCA--CTATTTT
65 CACAAGTTAGTGGCATTCCCTTTG
* * * *
1863803 AAAGCCCACAAGTCAGTGGCAT-CCTTCTTAAAGCCCACAAGT
1 AAAGCCTACAAGTTAGTGGCATATCTT-TCAAAGCCCACAAGT
1863845 TGGTGGCAAC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
85 25 0.23
86 14 0.13
87 12 0.11
89 32 0.30
90 24 0.22
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (88 bp):
AAAGCCTACAAGTTAGTGGCATATCTTTCAAAGCCCACAAGTAAATGACATCTTCTTCAAAGCCC
ACAAGTTAGTGGCATTCCCTTTG
Found at i:1863791 original size:57 final size:56
Alignment explanation
Indices: 1863476--1863863 Score: 294
Period size: 57 Copynumber: 6.6 Consensus size: 56
1863466 TGTGGCACAT
* * * **
1863476 TTTTCAAAGCCCACAAGTTAGTGGCACTCTTTCAAAGCCCATAAGTGAGTGTTATCC
1 TTTT-AAAGCCCACAAGTTAGTGGCAATCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
1863533 TTTCAAAGCCCACAAGTTAGTGGTGC-CTTTTTCAAAAGCCTACAAGTTAGTGGCAAT-G
1 TTTTAAAGCCCACAAGTTAGT-G-GCAATCTTTC-AAAGCCCACAAGTTAGTGGC-ATCC
* * * * * * **
1863591 TTTTCAAAAGCCCACATAATTCGGTGGTAACCTTTTTAAAGCCTACAAGTTAGTGGCATTTT
1 TTTT--AAAGCCCACA-AGTT-AGTGGCAATC-TTTCAAAGCCCACAAGTTAGTGGCA-TCC
* * * *
1863653 TTTTAAAGCCCACAAGTCAGTGACATTTTTTTCAAAGCCCACATAAGTTAGTGGCATTCCC
1 TTTTAAAGCCCACAAGTTAGTGGCA-ATCTTTCAAAGCCCAC--AAGTTAGTGGCA-T-CC
* * * * *
1863714 TTTGAAAGCCTATAAGTTAGTGGCAATCTTTCAAAGCCCACAAGTAAATGGCATCC
1 TTTTAAAGCCCACAAGTTAGTGGCAATCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * *
1863770 TTCTTAAAGCCCACAAGTTAGTGGCACTATTTTAAAGCCCACAAGTCAGTGGCATCC
1 TT-TTAAAGCCCACAAGTTAGTGGCAATCTTTCAAAGCCCACAAGTTAGTGGCATCC
* *
1863827 TTCTTAAAGCCCACAAGTTGGTGGCAACCCTTTCAAA
1 TT-TTAAAGCCCACAAGTTAGTGGCAA-TCTTTCAAA
1863864 AGCTTACATA
Statistics
Matches: 262, Mismatches: 51, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
56 21 0.08
57 82 0.31
58 51 0.19
59 4 0.02
60 50 0.19
61 45 0.17
62 9 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (56 bp):
TTTTAAAGCCCACAAGTTAGTGGCAATCTTTCAAAGCCCACAAGTTAGTGGCATCC
Found at i:1864764 original size:20 final size:20
Alignment explanation
Indices: 1864739--1864777 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1864729 TGATATAATT
* *
1864739 AGTGAATGTGTCGATACATA
1 AGTGAATATATCGATACATA
1864759 AGTGAATATATCGATACAT
1 AGTGAATATATCGATACAT
1864778 GTCTGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
AGTGAATATATCGATACATA
Found at i:1864913 original size:51 final size:52
Alignment explanation
Indices: 1864837--1864955 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 52
1864827 GAATGAAAAC
* * *
1864837 GTATCGATACATTTTTCATTGTATTGATACATTCAGGG-TTTTAACCCAAAT
1 GTATCAATACATTCTTCATTATATTGATACATTCAGGGTTTTTAACCCAAAT
** *
1864888 GTATCAATACATTCTTCATTATATTGATACATTTTGGGTTTTTAACCTAAAT
1 GTATCAATACATTCTTCATTATATTGATACATTCAGGGTTTTTAACCCAAAT
* *
1864940 GTATTAATACCTTCTT
1 GTATCAATACATTCTT
1864956 TAATGTATCG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 33 0.56
52 26 0.44
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (52 bp):
GTATCAATACATTCTTCATTATATTGATACATTCAGGGTTTTTAACCCAAAT
Found at i:1864969 original size:52 final size:51
Alignment explanation
Indices: 1864837--1864969 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 51
1864827 GAATGAAAAC
* * *
1864837 GTATCGATACATTTTTCATTGTATTGATACATTCAGGGTTTTAACCCAAAT
1 GTATCAATACATTCTTCAATGTATTGATACATTCAGGGTTTTAACCCAAAT
* * ** *
1864888 GTATCAATACATTCTTCATTATATTGATACATTTTGGGTTTTTAACCTAAAT
1 GTATCAATACATTCTTCAATGTATTGATACATTCAGGG-TTTTAACCCAAAT
* * * *
1864940 GTATTAATACCTTCTTTAATGTATCGATAC
1 GTATCAATACATTCTTCAATGTATTGATAC
1864970 TTATAGATAA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 33 0.48
52 36 0.52
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (51 bp):
GTATCAATACATTCTTCAATGTATTGATACATTCAGGGTTTTAACCCAAAT
Found at i:1867470 original size:25 final size:26
Alignment explanation
Indices: 1867431--1867484 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1867421 TCCAACCTTG
1867431 TTTTTCAACCAAAAATTAAATCTTTT
1 TTTTTCAACCAAAAATTAAATCTTTT
*
1867457 TTTTTGAACCAAAAATTAAATCTTTT
1 TTTTTCAACCAAAAATTAAATCTTTT
1867483 TT
1 TT
1867485 CTCTCTCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTTCAACCAAAAATTAAATCTTTT
Found at i:1870760 original size:14 final size:16
Alignment explanation
Indices: 1870729--1870760 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1870719 GAGATAACCC
1870729 TTTCTATATATATTTG
1 TTTCTATATATATTTG
1870745 TTTCTAT-TAT-TTTG
1 TTTCTATATATATTTG
1870759 TT
1 TT
1870761 ATAACTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTCTATATATATTTG
Found at i:1871942 original size:9 final size:9
Alignment explanation
Indices: 1871930--1871984 Score: 85
Period size: 9 Copynumber: 6.1 Consensus size: 9
1871920 AAATAGTAAG
1871930 AAAAAATAGA
1 AAAAAAT-GA
*
1871940 AAAAGA-GA
1 AAAAAATGA
1871948 AAAAAATGA
1 AAAAAATGA
1871957 AAAAAATGA
1 AAAAAATGA
1871966 AAAAAATGA
1 AAAAAATGA
1871975 AAAAAATGA
1 AAAAAATGA
1871984 A
1 A
1871985 GAAATATTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
8 7 0.17
9 30 0.71
10 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (9 bp):
AAAAAATGA
Found at i:1872747 original size:105 final size:104
Alignment explanation
Indices: 1872554--1872800 Score: 275
Period size: 105 Copynumber: 2.4 Consensus size: 104
1872544 CATATTTTAT
* **
1872554 ATCCATTTGTGCCTAGGAAAATATTGCATATATCCTATCATTTTTTTCTGAAATTTGCAAGCCAA
1 ATCCATTCGTGCCTAGGAAAATAGGGCATATATCCTATCATTTTTTTCTGAAATTTGCAAGCCAA
*
1872619 CCAAAGTTTTTTGAAACCTTTCAACCCATATACGACCTA
66 CCAAAGTTTTTTGAAACCCTTCAACCCATATACGACCTA
** * * * * **
1872658 ATCCATTCGTGCCTAGGAATCTAGGGCATATATCTTGTCTTTTGTTTTTTGAAATTTGTGAGCCA
1 ATCCATTCGTGCCTAGGAAAATAGGGCATATATCCTATCATTT-TTTTCTGAAATTTGCAAGCCA
* * *
1872723 ACCAAAGTTTTTTTAAGCCCTTCAACCCATTTATA-G-CCTG
65 ACCAAAGTTTTTTGAAACCCTTCAACCCA--TATACGACCTA
* * *
1872763 ATCCATTCATTCCTAGGAAAAT-GAGGCATGTATCCTAT
1 ATCCATTCGTGCCTAGGAAAATAG-GGCATATATCCTAT
1872801 TGGTTTTGAA
Statistics
Matches: 117, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
104 36 0.31
105 76 0.65
106 1 0.01
107 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (104 bp):
ATCCATTCGTGCCTAGGAAAATAGGGCATATATCCTATCATTTTTTTCTGAAATTTGCAAGCCAA
CCAAAGTTTTTTGAAACCCTTCAACCCATATACGACCTA
Found at i:1874000 original size:41 final size:41
Alignment explanation
Indices: 1873936--1874388 Score: 263
Period size: 41 Copynumber: 11.1 Consensus size: 41
1873926 AACCTTTAAA
* * *
1873936 CAACCCCTTTAACCTGTTAGCTTTATTAGTTTCACCTTGGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
** *
1873977 CAACCCCTCTAACTTGTTGGCTTTATCGGTTTC-GCTCTGGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCT-TGGC
* * * *
1874018 CAACCCCTCTAACTTGTTAGTTTTATTAGTTTCACCCTAGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
* *** ** * *
1874059 CAACTCCTCTAACCCATTGGC-TTATCGGTTTCATAC-TAGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCA-CCTTGGC
** * *
1874099 CAA-CCCTCTAACTTGTTGGCTTTATCGGCTTCA-CTATAGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCT-TGGC
* * * * * * *
1874139 CAACCCCTTTAACCTGTTAGTTTTATTAGTTTTACCTTAGT
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
* * * * * ** *
1874180 CAACCTCTATAACCTATTGGCTTTATCAGTTTTGCCCTGGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
* * * * ** *
1874221 CAACCCCTCAAACTTGTTGGTTTTATCAATTTCGTCTTGGT
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
** * * * ** *
1874262 CAACATCTATAACTTTTTGGTTTTATTAGTTT-TGCTCTAGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCT-TGGC
* * *
1874303 CAACCCCTTTAACTTGTTGGTTTTA-TAGGTTTCACCTTGAC
1 CAACCCCTCTAACTTGTTGGCTTTATTA-GTTTCACCTTGGC
* * * * * *
1874344 CAATCCCTTTAACTTGTTAGCTTTATTGGTTTCGCTTTGGC
1 CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
1874385 CAAC
1 CAAC
1874389 ACTTTCAACT
Statistics
Matches: 316, Mismatches: 84, Indels: 24
0.75 0.20 0.06
Matches are distributed among these distances:
38 1 0.00
39 13 0.04
40 41 0.13
41 255 0.81
42 6 0.02
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.40
Consensus pattern (41 bp):
CAACCCCTCTAACTTGTTGGCTTTATTAGTTTCACCTTGGC
Found at i:1874101 original size:40 final size:41
Alignment explanation
Indices: 1874054--1874144 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
1874044 TAGTTTCACC
*
1874054 CTAGCCAACTCCTCTAACCCATTGGC-TTATCGGTTTCA-TA
1 CTAGCCAAC-CCTCTAACCCATTGGCTTTATCGGCTTCACTA
***
1874094 CTAGCCAACCCTCTAACTTGTTGGCTTTATCGGCTTCACTA
1 CTAGCCAACCCTCTAACCCATTGGCTTTATCGGCTTCACTA
1874135 -TAGCCAACCC
1 CTAGCCAACCC
1874145 CTTTAACCTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 13 0.29
40 30 0.67
41 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (41 bp):
CTAGCCAACCCTCTAACCCATTGGCTTTATCGGCTTCACTA
Found at i:1874199 original size:121 final size:123
Alignment explanation
Indices: 1873955--1874247 Score: 351
Period size: 121 Copynumber: 2.4 Consensus size: 123
1873945 TAACCTGTTA
* * * * * *
1873955 GCTTTATTAGTTTCAC-CTTGGCCAACCCCTCTAACTTGTTGGCTTTATCGGTTTCGCTCTGGCC
1 GCTTTATCAGTTTCACAC-TAGCCAACCCCTCTAACTTGTTGGCTTTATCGGCTTCACTATAGCC
* *
1874019 AACCCCTCTAACTTGTTAGTTTTATTAGTTTCACCCTAGCCAACTCCTCTAACCCATTG
65 AACCCCTCTAACCTGTTAGTTTTATTAGTTTCACCCTAGCCAACTCCTATAACCCATTG
* *
1874078 GC-TTATCGGTTTCATACTAGCCAA-CCCTCTAACTTGTTGGCTTTATCGGCTTCACTATAGCCA
1 GCTTTATCAGTTTCACACTAGCCAACCCCTCTAACTTGTTGGCTTTATCGGCTTCACTATAGCCA
* * * * *
1874141 ACCCCTTTAACCTGTTAGTTTTATTAGTTTTACCTTAGTCAAC-CTCTATAACCTATTG
66 ACCCCTCTAACCTGTTAGTTTTATTAGTTTCACCCTAGCCAACTC-CTATAACCCATTG
** * * * *
1874199 GCTTTATCAGTTTTGCCCTGGCCAACCCCTCAAACTTGTTGGTTTTATC
1 GCTTTATCAGTTTCACACTAGCCAACCCCTCTAACTTGTTGGCTTTATC
1874248 AATTTCGTCT
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
120 1 0.01
121 86 0.60
122 32 0.22
123 24 0.17
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (123 bp):
GCTTTATCAGTTTCACACTAGCCAACCCCTCTAACTTGTTGGCTTTATCGGCTTCACTATAGCCA
ACCCCTCTAACCTGTTAGTTTTATTAGTTTCACCCTAGCCAACTCCTATAACCCATTG
Found at i:1874399 original size:41 final size:41
Alignment explanation
Indices: 1874309--1874412 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
1874299 TAGCCAACCC
* * * *
1874309 CTTTAACTTGTTGGTTTTATAGGTTTCACCTTGACCAATCC
1 CTTTAACTTGTTAGCTTTATTGGTTTCACCTTGACCAATCA
* * *
1874350 CTTTAACTTGTTAGCTTTATTGGTTTCGCTTTGGCCAA-CA
1 CTTTAACTTGTTAGCTTTATTGGTTTCACCTTGACCAATCA
*
1874390 CTTTCAACTTGTTAGGTTTATTG
1 CTTT-AACTTGTTAGCTTTATTG
1874413 ATTTTGCCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 5 0.09
41 49 0.91
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.46
Consensus pattern (41 bp):
CTTTAACTTGTTAGCTTTATTGGTTTCACCTTGACCAATCA
Found at i:1874399 original size:123 final size:122
Alignment explanation
Indices: 1873936--1874451 Score: 456
Period size: 123 Copynumber: 4.2 Consensus size: 122
1873926 AACCTTTAAA
*
1873936 CAACCCCTTTAACCTGTTAGCTTTATTA-GTTTCACCTTGGCCAACCCCTCTAACTTGTTGGCTT
1 CAACCCCTTTAACCTGTTGGCTTTA-TAGGTTTCACCTTGGCCAACCCCTCTAACTTGTTGGCTT
* * * *
1874000 TATCGGTTTCGCTCTGGCCAACCCCTCTAACTTGTTAGTTTTATTAGTTTCACCCTAGC
65 TATCGGTTTCGCTTTGGCCAA-CACTTTAACTTGTTAGTTTTATTAGTTTTACCCTAGC
* * ** * * *
1874059 CAACTCCTCTAACCCATTGGC-TTATCGGTTTCATAC-TAGCCAA-CCCTCTAACTTGTTGGCTT
1 CAACCCCTTTAACCTGTTGGCTTTATAGGTTTCA-CCTTGGCCAACCCCTCTAACTTGTTGGCTT
* * * * * * * *
1874121 TATCGGCTTCACTATAGCCAACCCCTTTAACCTGTTAGTTTTATTAGTTTTACCTTAGT
65 TATCGGTTTCGCTTTGGCCAA-CACTTTAACTTGTTAGTTTTATTAGTTTTACCCTAGC
* * * * * *
1874180 CAACCTCTATAACCTATTGGCTTTATCAGTTTTGC-CC-TGGCCAACCCCTCAAACTTGTTGGTT
1 CAACCCCTTTAACCTGTTGGCTTTAT-AGGTTT-CACCTTGGCCAACCCCTCTAACTTGTTGGCT
** * * * * * *
1874243 TTATCAATTTCG-TCTTGGTCAACATCTATAACTTTTTGGTTTTATTAGTTTTGCTCTAGC
64 TTATCGGTTTCGCT-TTGGCCAACA-CTTTAACTTGTTAGTTTTATTAGTTTTACCCTAGC
* * * * * *
1874303 CAACCCCTTTAACTTGTTGGTTTTATAGGTTTCACCTTGACCAATCCCTTTAACTTGTTAGCTTT
1 CAACCCCTTTAACCTGTTGGCTTTATAGGTTTCACCTTGGCCAACCCCTCTAACTTGTTGGCTTT
* * *
1874368 ATTGGTTTCGCTTTGGCCAACACTTTCAACTTGTTAGGTTTATT-GATTTTGCCCTAGC
66 ATCGGTTTCGCTTTGGCCAACACTTT-AACTTGTTAGTTTTATTAG-TTTTACCCTAGC
** *
1874426 CAA-CTTTTCTAACTTGTTGGCTTTAT
1 CAACCCCTT-TAACCTGTTGGCTTTAT
1874452 CATTTTCGTT
Statistics
Matches: 312, Mismatches: 67, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
121 88 0.28
122 42 0.13
123 180 0.58
124 2 0.01
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (122 bp):
CAACCCCTTTAACCTGTTGGCTTTATAGGTTTCACCTTGGCCAACCCCTCTAACTTGTTGGCTTT
ATCGGTTTCGCTTTGGCCAACACTTTAACTTGTTAGTTTTATTAGTTTTACCCTAGC
Found at i:1874428 original size:41 final size:40
Alignment explanation
Indices: 1874349--1874451 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 40
1874339 TTGACCAATC
* * ** *
1874349 CCTTT-AACTTGTTAGCTTTATTGGTTTCGCTTTGGCCAA
1 CCTTTCAACTTGTTAGGTTTATTGATTTCGCCCTAGCCAA
*
1874388 CACTTTCAACTTGTTAGGTTTATTGATTTTGCCCTAGCCAA
1 C-CTTTCAACTTGTTAGGTTTATTGATTTCGCCCTAGCCAA
*
1874429 CTTTTCTAACTTGTT-GGCTTTAT
1 CCTTTC-AACTTGTTAGG-TTTAT
1874452 CATTTTCGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 10 0.19
41 42 0.79
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (40 bp):
CCTTTCAACTTGTTAGGTTTATTGATTTCGCCCTAGCCAA
Done.