Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 39
Found at i:1081334 original size:40 final size:40
Alignment explanation
Indices: 1081250--1081380 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
1081240 GAATACGTAA
* *
1081250 ATCGCAATGCGAATACGTAAATCGCAATGCGAATAC-GTA-A
1 ATCGCAACGCGAATACGTAAATCGCAATGCGAAT-CTG-ACT
*
1081290 ATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACT
1 ATCGCAACGCGAATACGTAAATCGCAATGCGAATCTGACT
* * * * *
1081330 ATCGCAACGCGATTATG-ACTATCGCAACG-GATTCTGACT
1 ATCGCAACGCGAATACGTA-AATCGCAATGCGAATCTGACT
1081369 ATCGCAACGCGA
1 ATCGCAACGCGA
1081381 TTCTGACTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
39 24 0.30
40 57 0.70
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (40 bp):
ATCGCAACGCGAATACGTAAATCGCAATGCGAATCTGACT
Found at i:1081354 original size:60 final size:59
Alignment explanation
Indices: 1081231--1081416 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
1081221 TTTTCCTAAT
* * * * * *
1081231 TCGCAATATGAATACGTAAATCGCAATGCGAATAC-GTA-AATCGCAATGCGAATACGTA-AA
1 TCGCAAT-CGAATACGTAAATCGCAATGCGAAT-CTG-ACTATCGCAACGCGATTATG-ACTA
1081291 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTATCGCAACGCGATTATGACTA
1 TCGCAAT-CGAATACGTAAATCGCAATGCGAATCTGACTATCGCAACGCGATTATGACTA
* * * * * * *
1081351 TCGCAA-CGGATTC-TGACTATCGCAACGCGATTCTGACTATCGCAACGGGATTCTGACTA
1 TCGCAATCGAATACGT-A-AATCGCAATGCGAATCTGACTATCGCAACGCGATTATGACTA
1081410 TCGCAAT
1 TCGCAAT
1081417 ACTGAATTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 6 0.06
59 46 0.43
60 53 0.50
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (59 bp):
TCGCAATCGAATACGTAAATCGCAATGCGAATCTGACTATCGCAACGCGATTATGACTA
Found at i:1081375 original size:39 final size:40
Alignment explanation
Indices: 1081323--1081415 Score: 170
Period size: 39 Copynumber: 2.4 Consensus size: 40
1081313 GCAATGCGAA
1081323 TCTGACTATCGCAACGCGATTATGACTATCGCAAC-GGAT
1 TCTGACTATCGCAACGCGATTATGACTATCGCAACGGGAT
*
1081362 TCTGACTATCGCAACGCGATTCTGACTATCGCAACGGGAT
1 TCTGACTATCGCAACGCGATTATGACTATCGCAACGGGAT
1081402 TCTGACTATCGCAA
1 TCTGACTATCGCAA
1081416 TACTGAATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 34 0.65
40 18 0.35
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TCTGACTATCGCAACGCGATTATGACTATCGCAACGGGAT
Found at i:1084695 original size:20 final size:19
Alignment explanation
Indices: 1084670--1084751 Score: 128
Period size: 20 Copynumber: 4.2 Consensus size: 19
1084660 GACATTCATT
1084670 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAA-A
*
1084690 TGACTATCGCAACACGTAAA
1 TGACTATCGCAACGCG-AAA
1084710 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGC-GAAA
1084730 TGACTATCGCAACGCGAAA
1 TGACTATCGCAACGCGAAA
1084749 TGA
1 TGA
1084752 AAATCACAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
19 7 0.12
20 48 0.83
21 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (19 bp):
TGACTATCGCAACGCGAAA
Found at i:1084761 original size:19 final size:20
Alignment explanation
Indices: 1084719--1084762 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
1084709 ATGACTATCG
** *
1084719 CAACGCGGAAATGACTATCG
1 CAACGCGGAAATGAAAATCA
1084739 CAACGC-GAAATGAAAATCA
1 CAACGCGGAAATGAAAATCA
1084758 CAACG
1 CAACG
1084763 AGAGAATCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (20 bp):
CAACGCGGAAATGAAAATCA
Found at i:1084852 original size:14 final size:14
Alignment explanation
Indices: 1084835--1084884 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
1084825 TTTCTCATTA
1084835 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
1084849 CGATTTTCATTCGCATTG
1 CGATTCTC--TCG--TTG
1084867 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
1084881 CGAT
1 CGAT
1084885 AGTCATTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 14 0.47
16 6 0.20
18 10 0.33
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (14 bp):
CGATTCTCTCGTTG
Found at i:1084875 original size:32 final size:33
Alignment explanation
Indices: 1084813--1084903 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 33
1084803 TAGTTTCGCA
* *
1084813 TTGCGA-TTTCATTTTCTCATTACGATTCTCTCG
1 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1084846 TTGCGATTTTCA-TTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
** *
1084878 TTGCGATAGTCATTTCGCGTTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1084904 AGTCTGTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
32 28 0.55
33 18 0.35
34 5 0.10
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:1085027 original size:14 final size:14
Alignment explanation
Indices: 1085008--1085044 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1084998 CATCAATTAA
1085008 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1085022 ACAAATCATCTTTT
1 ACAAATCAACATTT
1085036 ACAAATCAA
1 ACAAATCAA
1085045 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1086480 original size:21 final size:21
Alignment explanation
Indices: 1086399--1086481 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 21
1086389 GAATGTTGGG
* *
1086399 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTGAACGATGAT
* * **
1086420 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAT
* **
1086441 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAT
*
1086462 AGGGGCCTCTTGAATGATGA
1 AGGGGCCTCTTGAACGATGA
1086482 CAGGTGAGTC
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAT
Found at i:1086988 original size:20 final size:20
Alignment explanation
Indices: 1086965--1087073 Score: 137
Period size: 20 Copynumber: 5.5 Consensus size: 20
1086955 GAAACTTAAA
*
1086965 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1086985 ATCGCAACGCGAAAATGACC
1 ATCGCAACGCGAAAATGACT
*
1087005 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1087025 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* **
1087045 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1087065 ATCGCAACG
1 ATCGCAACG
1087074 AGAGAATCAC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1087143 original size:20 final size:20
Alignment explanation
Indices: 1087118--1087273 Score: 97
Period size: 20 Copynumber: 8.5 Consensus size: 20
1087108 GATTCTTTCG
*
1087118 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
* *
1087138 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCAATTTCGCA
*
1087158 TTGTGATAGTC-ATTTCGCA
1 TTGCGATAGTCAATTTCGCA
**
1087177 TTGCGAT--TTTA-TT-G--
1 TTGCGATAGTCAATTTCGCA
** *
1087191 TTGCGATTTTC-ATTTCGAA
1 TTGCGATAGTCAATTTCGCA
*
1087210 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCAATTTCGCA
* *
1087224 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
*
1087244 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAATTTCGCA
1087264 TTGCGATAGT
1 TTGCGATAGT
1087274 AAACTATTCT
Statistics
Matches: 111, Mismatches: 12, Indels: 26
0.74 0.08 0.17
Matches are distributed among these distances:
14 14 0.13
15 1 0.01
16 10 0.09
17 6 0.05
18 5 0.05
19 19 0.17
20 56 0.50
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Found at i:1087204 original size:33 final size:33
Alignment explanation
Indices: 1087094--1087250 Score: 125
Period size: 33 Copynumber: 4.5 Consensus size: 33
1087084 AATGCGATTT
* *
1087094 TCATTTCACATTGCGATTCTTTCGTTGCGATAG
1 TCATTTCGCATTGCGATTCTATCGTTGCGATAG
* * * *
1087127 TCAAATTCGCATTGCGATAGTCATTTTCACATTGTGATAG
1 TC-ATTTCGCATTGCGAT--TC--TAT--CGTTGCGATAG
* * **
1087167 TCATTTCGCATTGCGATTTTATTGTTGCGATTT
1 TCATTTCGCATTGCGATTCTATCGTTGCGATAG
* *
1087200 TCATTTCGAATTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCATTGCGATTCTATCGTTGCGATAG
*
1087233 TCATTTTCGCGTTGCGAT
1 TCA-TTTCGCATTGCGAT
1087251 AGTCATTTTC
Statistics
Matches: 96, Mismatches: 20, Indels: 15
0.73 0.15 0.11
Matches are distributed among these distances:
33 38 0.40
34 25 0.26
35 2 0.02
36 2 0.02
37 1 0.01
38 3 0.03
39 14 0.15
40 11 0.11
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (33 bp):
TCATTTCGCATTGCGATTCTATCGTTGCGATAG
Found at i:1089162 original size:20 final size:20
Alignment explanation
Indices: 1089139--1089204 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
1089129 GAAACTTAAA
*
1089139 ATCGTAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
1089159 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
1089178 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
1089198 ATCGCAA
1 ATCGCAA
1089205 TGCAAGAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:1089175 original size:19 final size:19
Alignment explanation
Indices: 1089136--1089239 Score: 83
Period size: 19 Copynumber: 5.6 Consensus size: 19
1089126 TCTGAAACTT
* *
1089136 AAAATCGTAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
**
1089156 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
1089175 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
1089195 ACTATCGCAATGC--AA-G
1 AAAATCGCAACGCGAAATG
1089211 --AATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
1089228 AAAATCGCAACG
1 AAAATCGCAACG
1089240 ACAGAATCGC
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
14 9 0.14
16 3 0.05
17 3 0.05
19 26 0.40
20 24 0.37
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:1089235 original size:33 final size:34
Alignment explanation
Indices: 1089177--1089250 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
1089167 GCGAAATGAA
** *
1089177 AATCGCAACACGAAAATGACTATCGCAATG-CAAG
1 AATCGCAACACGAAAATGAAAATCGCAACGAC-AG
*
1089211 AATCGCAACGCG-AAATGAAAATCGCAACGACAG
1 AATCGCAACACGAAAATGAAAATCGCAACGACAG
1089244 AATCGCA
1 AATCGCA
1089251 TTGCGATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (34 bp):
AATCGCAACACGAAAATGAAAATCGCAACGACAG
Found at i:1089634 original size:22 final size:21
Alignment explanation
Indices: 1089570--1089634 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
1089560 TGACCGTGAA
1089570 TGATTTCG-CGGAGATGGAGAC
1 TGATTTCGTCGGAGATGG-GAC
* *
1089591 TGATATCGTCAGAGATGGGGAC
1 TGATTTCGTCGGAGAT-GGGAC
1089613 TGATTTCGTCGGAGATGAGGAC
1 TGATTTCGTCGGAGATG-GGAC
1089635 GTCGCCTAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.22
22 27 0.73
23 2 0.05
ACGTcount: A:0.25, C:0.14, G:0.37, T:0.25
Consensus pattern (21 bp):
TGATTTCGTCGGAGATGGGAC
Found at i:1089847 original size:20 final size:20
Alignment explanation
Indices: 1089824--1089949 Score: 234
Period size: 20 Copynumber: 6.3 Consensus size: 20
1089814 AGATAGTCAG
* *
1089824 ATTCGCATTACGATTTACAT
1 ATTCGCATTGCGATTTACGT
1089844 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1089864 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1089884 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1089904 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1089924 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1089944 ATTCGC
1 ATTCGC
1089950 TGCGTCGGCG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 104 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1090333 original size:16 final size:16
Alignment explanation
Indices: 1090299--1090349 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
1090289 AGTGTTATTG
1090299 AAAATATT--CAAAG-
1 AAAATATTAACAAAGT
1090312 AAAATATTAACAAAGT
1 AAAATATTAACAAAGT
* * *
1090328 AAAATAGTAAAAAAAT
1 AAAATATTAACAAAGT
1090344 AAAATA
1 AAAATA
1090350 AAAATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.25
15 5 0.16
16 19 0.59
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAATATTAACAAAGT
Found at i:1092876 original size:29 final size:30
Alignment explanation
Indices: 1092820--1092892 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
1092810 CTATCTTTGC
* * *
1092820 TTAAAACTATATTTTATTTTTATTTTAA-A
1 TTAAAAATATATTTTATTATTATCTTAACA
* *
1092849 TTAAAAATATATTTTATTATTGTCTTAACTT
1 TTAAAAATATATTTTATTATTATCTTAAC-A
1092880 TTAAAAATATATT
1 TTAAAAATATATT
1092893 AAAATATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 24 0.65
31 13 0.35
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (30 bp):
TTAAAAATATATTTTATTATTATCTTAACA
Found at i:1093108 original size:25 final size:28
Alignment explanation
Indices: 1093050--1093145 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
1093040 ACATTAAAAT
1093050 AAAAATAAAATATATTTAATAAATTAAGG
1 AAAAATAAAATATATTTAATAAATTAA-G
*
1093079 CAAAAATAAAA-ATATTTAATAAGTT-A-
1 -AAAAATAAAATATATTTAATAAATTAAG
*
1093105 AAAAATAAAGATA-ATTTTAA-AATTTAAG
1 AAAAATAAA-ATATA-TTTAATAAATTAAG
* *
1093133 ATATATAAAATAT
1 AAAAATAAAATAT
1093146 TATTAATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 9 0.16
26 6 0.11
27 10 0.18
28 8 0.14
29 13 0.23
30 10 0.18
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAATAAAATATATTTAATAAATTAAG
Found at i:1093782 original size:20 final size:20
Alignment explanation
Indices: 1093759--1093796 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1093749 CCTCCTATTT
*
1093759 TGCGTTTGATTATTTTCCCC
1 TGCGTTAGATTATTTTCCCC
*
1093779 TGCGTTAGATTCTTTTCC
1 TGCGTTAGATTATTTTCC
1093797 TAGTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.50
Consensus pattern (20 bp):
TGCGTTAGATTATTTTCCCC
Found at i:1096276 original size:20 final size:20
Alignment explanation
Indices: 1096240--1096277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1096230 CCATTTCTTT
* *
1096240 TAAATTTTATAATATATATA
1 TAAATTTTAAAAAATATATA
1096260 TAAATTTTAAAAAATATA
1 TAAATTTTAAAAAATATA
1096278 AATTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTTTAAAAAATATATA
Found at i:1096293 original size:14 final size:16
Alignment explanation
Indices: 1096257--1096291 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1096247 TATAATATAT
1096257 ATATAAATTTTAAAAA
1 ATATAAATTTTAAAAA
1096273 ATATAAA-TTTAAAATA
1 ATATAAATTTTAAAA-A
1096289 ATA
1 ATA
1096292 AAGTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAATTTTAAAAA
Found at i:1097371 original size:29 final size:29
Alignment explanation
Indices: 1097335--1097410 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
1097325 GATTGAAATT
1097335 ATGATTTTTAAAGTTTTTGAGGATTTCTTA
1 ATGATTTTTAAAGTTTTTG-GGATTTCTTA
* *
1097365 A-GATTTTTGAAA-ATTTTGGGATTTTTTA
1 ATGATTTTT-AAAGTTTTTGGGATTTCTTA
* *
1097393 ATAATTTTTTAAGTTTTT
1 ATGATTTTTAAAGTTTTT
1097411 TTATTTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 12 0.32
29 22 0.58
30 4 0.11
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (29 bp):
ATGATTTTTAAAGTTTTTGGGATTTCTTA
Found at i:1098380 original size:19 final size:18
Alignment explanation
Indices: 1098357--1098406 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
1098347 TTTTAATATT
1098357 TTAATTATTTTTTATAAA
1 TTAATTATTTTTTATAAA
* *
1098375 TATAATAATCATTTTATAAA
1 T-TAATTAT-TTTTTATAAA
1098395 TTAATTATTTTT
1 TTAATTATTTTT
1098407 ACAGTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTATTTTTTATAAA
Found at i:1120985 original size:89 final size:89
Alignment explanation
Indices: 1120834--1121014 Score: 353
Period size: 89 Copynumber: 2.0 Consensus size: 89
1120824 TCGAGTTCTC
1120834 TTTGCTAGTGCCTTATTGGGCTTGTCGACCCTCAGTCCTAAGCCCATTACAAGCCTATACGGAGA
1 TTTGCTAGTGCCTTATTGGGCTTGTCGACCCTCAGTCCTAAGCCCATTACAAGCCTATACGGAGA
1120899 ATAAATTCACACGAAGACATAAGG
66 ATAAATTCACACGAAGACATAAGG
*
1120923 TTTGCTAGTGCCTTATTGGGCTTGTCGACCCTCAGTCCTAAGCCCATTATAAGCCTATACGGAGA
1 TTTGCTAGTGCCTTATTGGGCTTGTCGACCCTCAGTCCTAAGCCCATTACAAGCCTATACGGAGA
1120988 ATAAATTCACACGAAGACATAAGG
66 ATAAATTCACACGAAGACATAAGG
1121012 TTT
1 TTT
1121015 ATGAATCCCG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (89 bp):
TTTGCTAGTGCCTTATTGGGCTTGTCGACCCTCAGTCCTAAGCCCATTACAAGCCTATACGGAGA
ATAAATTCACACGAAGACATAAGG
Found at i:1126405 original size:102 final size:102
Alignment explanation
Indices: 1126229--1126433 Score: 392
Period size: 102 Copynumber: 2.0 Consensus size: 102
1126219 GCTATGTGTT
**
1126229 GATGGGAAAATGTTGGTTGTGACGGTTGTAAACGGTCCATCTCTCTCACAGAATCACTGGACGTG
1 GATGGGAAAATGTTGGTTGTGACAATTGTAAACGGTCCATCTCTCTCACAGAATCACTGGACGTG
1126294 ATTCTCCGCTCAAACCAGAAGGAGTGAATCATTTACA
66 ATTCTCCGCTCAAACCAGAAGGAGTGAATCATTTACA
1126331 GATGGGAAAATGTTGGTTGTGACAATTGTAAACGGTCCATCTCTCTCACAGAATCACTGGACGTG
1 GATGGGAAAATGTTGGTTGTGACAATTGTAAACGGTCCATCTCTCTCACAGAATCACTGGACGTG
1126396 ATTCTCCGCTCAAACCAGAAGGAGTGAATCATTTACA
66 ATTCTCCGCTCAAACCAGAAGGAGTGAATCATTTACA
1126433 G
1 G
1126434 TCTCACAACC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (102 bp):
GATGGGAAAATGTTGGTTGTGACAATTGTAAACGGTCCATCTCTCTCACAGAATCACTGGACGTG
ATTCTCCGCTCAAACCAGAAGGAGTGAATCATTTACA
Found at i:1128682 original size:15 final size:15
Alignment explanation
Indices: 1128647--1128680 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
1128637 GGCGGAAGCC
1128647 ATTTTCACAGCTGTG
1 ATTTTCACAGCTGTG
1128662 ATTTTCA-AGCTGTG
1 ATTTTCACAGCTGTG
1128676 ATTTT
1 ATTTT
1128681 TCTTTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.47
Consensus pattern (15 bp):
ATTTTCACAGCTGTG
Found at i:1133140 original size:18 final size:17
Alignment explanation
Indices: 1133109--1133142 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1133099 TTCTTTCAAA
1133109 TTTTTATTACTTATTAT
1 TTTTTATTACTTATTAT
*
1133126 TTTTATATTATTTATTA
1 TTTT-TATTACTTATTA
1133143 ATATTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATTACTTATTAT
Found at i:1138387 original size:12 final size:12
Alignment explanation
Indices: 1138370--1138396 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1138360 AAAATCCAGC
1138370 AAAGAAAGAAAA
1 AAAGAAAGAAAA
1138382 AAAGAAAGAAAA
1 AAAGAAAGAAAA
1138394 AAA
1 AAA
1138397 AGGAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:1138396 original size:13 final size:13
Alignment explanation
Indices: 1138370--1138411 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1138360 AAAATCCAGC
1138370 AAAGAAAG-AAAA
1 AAAGAAAGAAAAA
1138382 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
*
1138395 AAAGGAAA-AAGAA
1 AAA-GAAAGAAAAA
1138408 AAAG
1 AAAG
1138412 GGAGAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 14 0.52
14 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:1140760 original size:114 final size:114
Alignment explanation
Indices: 1140560--1140779 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
1140550 CACATTCTCG
* *
1140560 TAGTAGAAATAAGAAGACCAAATAGCAACTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCAAATAGCAACTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
* * *
1140625 GGTATGAACCTCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
* * *
1140674 TAGTAGAAATAAGGAGACCTAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCAAATAGCAACTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
* *
1140739 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
1140780 CTACATGATC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCAAATAGCAACTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
Found at i:1143253 original size:21 final size:21
Alignment explanation
Indices: 1143227--1143270 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1143217 TGTGTTTCAA
1143227 TAGTTAAATTAGAACAGACTC
1 TAGTTAAATTAGAACAGACTC
1143248 TAGTTAAATTAGAACAGACTC
1 TAGTTAAATTAGAACAGACTC
1143269 TA
1 TA
1143271 CTCTCCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (21 bp):
TAGTTAAATTAGAACAGACTC
Found at i:1143376 original size:21 final size:22
Alignment explanation
Indices: 1143325--1143400 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
1143315 ATCTACATTC
*
1143325 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
1143347 TTCAAAGATGATAGATTC-CTT
1 TTCAAAGATGATAGATTCTCTT
* *
1143368 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1143390 TTCAAAGATGA
1 TTCAAAGATGA
1143401 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.37
22 31 0.63
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1144422 original size:224 final size:222
Alignment explanation
Indices: 1143816--1144466 Score: 855
Period size: 224 Copynumber: 2.9 Consensus size: 222
1143806 CCATCATTCA
*
1143816 ATGGATCAACAT-TG-CAAGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
1 ATGGATCAAC-TGTGCCAAG-AGAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAG
1143879 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATC-ACATTACC
63 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCA-TTGATGGATCAACATTACC
* **
1143943 AGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTTGTAATGAGAAGAAC
127 AGG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
*
1144008 TTGTTCAACTTTTCGCTCGAATTCATCACTAG
191 TTGTTCAACTTTTCGCTCAAATTCATCACTAG
* *
1144040 ATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGCAAGAAGAAGT
1 ATGGATCAACTGTGCCA-AGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG-AAGAAGAAGT
* * * * *
1144105 TCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATTGATCAGCAGTGCCA
64 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATT-GATGGATCAACATTACCA
* **
1144170 GTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACT
128 G-GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * *
1144235 TGTTCAACTTTTTGCTTAAATTCATCACTCG
192 TGTTCAACTTTTCGCTCAAATTCATCACTAG
* * ** * *
1144266 GTGGATC-AGTAGTGCC-AGTTAGTTCATAATGAGAAGAACTCGTCTAAAGAATGAAGAAGAAGT
1 ATGGATCAACT-GTGCCAAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGT
* * * *
1144329 TCATAATGAGAAGAATTTGTTCAACCTTTT-GCTTAAATTCATCACTTGATGGATCAACTTTTCC
64 TCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCA-TTGATGGATCAACATTACC
* *
1144393 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGC
127 AG-GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
*
1144458 TTATTCAAC
191 TTGTTCAAC
1144467 CTTTGCTAGA
Statistics
Matches: 376, Mismatches: 40, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
223 1 0.00
224 171 0.45
225 102 0.27
226 102 0.27
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (222 bp):
ATGGATCAACTGTGCCAAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTGATGGATCAACATTACCAGGA
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTCAAATTCATCACTAG
Found at i:1144422 original size:337 final size:337
Alignment explanation
Indices: 1143807--1144466 Score: 995
Period size: 337 Copynumber: 2.0 Consensus size: 337
1143797 GATTTAAATC
*
1143807 CATCATTCAATGGATCAACATTGCAAGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAA
1 CATCATTCAATGGATCAACAGTGCAAGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAA
* * *
1143872 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATCAC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTAAATTCATCACTCGATGGATCAC
* * **
1143937 ATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTTGTAATGAG
131 AGTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAG
* *
1144002 AAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTAGATGGATCAACTTTTCCAGAGAGAGTTC
196 AAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTAGATGGATCAACTTTTCCAGAGAAAGTTC
*
1144067 ATAATGAGAAGAACTCATCTGAAGAAGCAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTT
261 ATAATGAGAAGAACTCATCTGAAGAAGCAAGAAGAAGTTCATAATAAGAAGAACTTATTCAACTT
1144132 TTCGCTTGAATT
326 TTCGCTTGAATT
* * * * *
1144144 CATCATTCGATTGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATA-
1 CATCATTCAATGGATCAACAGTGCAAG-TAGAGTTCATAATAAGAAGAACTCATCTGAAGAA-AG
* *
1144208 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGATC
64 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTAAATTCATCACTCGATGGATC
* * * * *
1144273 AGTAGTGCCA-GT-TAGTTCATAATGAGAAGAACTCGTCTAAAGAATGAAGAAGAAGTTCATAAT
129 A-CAGTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAAT
* * *
1144336 GAGAAGAATTTGTTCAACCTTTT-GCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAA
193 GAGAAGAACTTGTTCAA-CTTTTCGCTCAAATTCATCACTAGATGGATCAACTTTTCCAGAGAAA
* * *
1144400 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCA
257 GTTCATAATGAGAAGAACTCATCTGAAGAAGCAAGAAGAAGTTCATAATAAGAAGAACTTATTCA
1144465 AC
322 AC
1144467 CTTTGCTAGA
Statistics
Matches: 290, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
337 183 0.63
338 101 0.35
339 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (337 bp):
CATCATTCAATGGATCAACAGTGCAAGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTAAATTCATCACTCGATGGATCAC
AGTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTAGATGGATCAACTTTTCCAGAGAAAGTTC
ATAATGAGAAGAACTCATCTGAAGAAGCAAGAAGAAGTTCATAATAAGAAGAACTTATTCAACTT
TTCGCTTGAATT
Found at i:1144470 original size:113 final size:113
Alignment explanation
Indices: 1143816--1144466 Score: 843
Period size: 113 Copynumber: 5.8 Consensus size: 113
1143806 CCATCATTCA
* * *
1143816 ATGGATCAACATTG-CA-AGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
1 ATGGATCAACTTTGCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
*
1143879 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTG
65 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
* * *
1143928 ATGGATC-ACATTACCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATCAACTTTGCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
** * *
1143991 TTTGTAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTAG
65 TTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
* *
1144040 ATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGCAAGAAGAAGT
1 ATGGATCAACTTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
1144105 TCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCA-TTCG
66 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTT-G
* * ** ** **
1144153 ATTGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATAAAGAAGAAGT
1 ATGGATCAACTTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
1144218 TCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCG
66 TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
* * * ** * * *
1144266 GTGGATC-AGTAGTGCC--AGTTAGTTCATAATGAGAAGAACTCGTCTAAAGAATGAAGAAGAAG
1 ATGGATCAACT-TTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* *
1144328 TTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTTAAATTCATCACTTG
65 TTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCACTTG
* *
1144377 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* *
1144442 TCATAATGAGAAGAGCTTATTCAAC
66 TCATAATGAGAAGAACTTGTTCAAC
1144467 CTTTGCTAGA
Statistics
Matches: 471, Mismatches: 57, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
111 94 0.20
112 112 0.24
113 263 0.56
114 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
ATGGATCAACTTTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCACTTG
Found at i:1144696 original size:3 final size:3
Alignment explanation
Indices: 1144690--1144750 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
1144680 TTCATTTGAA
1144690 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1144735 TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TA
1144751 ATAAATATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 3 0.05
3 51 0.93
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1146843 original size:124 final size:123
Alignment explanation
Indices: 1146655--1146882 Score: 316
Period size: 124 Copynumber: 1.8 Consensus size: 123
1146645 TATTTTAAGA
* * ** *
1146655 AAATATTTTAGTTATTTATTTATTTTTTAATGTTGAAGGAAAGAGCTGTCTTAAAGCAACTAGAA
1 AAATATTTGAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCAACTAGAA
* *
1146720 GTCCTTTTCTAAATATTTTTAAATAAATAAATATCTTACTATATTAAAATAAATTTTTT
66 GCCCTTTTCT-AATATTTTCAAATAAATAAATATCTTACTATATTAAAATAAATTTTTT
* *
1146779 AAATGTTTGAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTT-AAG-ATACCTAG
1 AAATATTTGAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCA-A-CTAG
* *
1146842 AAGCCCTTTTCTGATATTTTCAAATAAATAAATATTTTACT
64 AAGCCCTTTTCTAATATTTTCAAATAAATAAATATCTTACT
1146883 TATAAATATA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
122 1 0.01
123 30 0.33
124 60 0.66
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (123 bp):
AAATATTTGAGTTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCAACTAGAA
GCCCTTTTCTAATATTTTCAAATAAATAAATATCTTACTATATTAAAATAAATTTTTT
Found at i:1146898 original size:29 final size:31
Alignment explanation
Indices: 1146864--1146931 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
1146854 GATATTTTCA
* *
1146864 AATAAATAA-ATATTTTACTTATAAATATA-T
1 AATAAATAATAGATTTT-CTTAAAAATATAGT
1146894 -ATAAATTAATAGATTTTCTTAAAAATATAGT
1 AATAAA-TAATAGATTTTCTTAAAAATATAGT
1146925 AATAAAT
1 AATAAAT
1146932 TTGAGATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 8 0.25
32 5 0.16
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
AATAAATAATAGATTTTCTTAAAAATATAGT
Found at i:1157196 original size:25 final size:25
Alignment explanation
Indices: 1157092--1157213 Score: 86
Period size: 25 Copynumber: 4.8 Consensus size: 25
1157082 AGATCACAAA
* *
1157092 TCATTTTCTATAATTGGATGGTAAT
1 TCATTTTCTATAATTGAATAGTAAT
* *
1157117 TCATTTTCTATACTTGAATAGTAGGT
1 TCATTTTCTATAATTGAATAGTA-AT
** * * * *
1157143 AAATGTTCT-TGATTAAGATCA-TAAA
1 TCATTTTCTATAATTGA-AT-AGTAAT
*
1157168 TCATTTTCTATAATTGAATAGTAGT
1 TCATTTTCTATAATTGAATAGTAAT
* *
1157193 TCATTTTCAATACTTGAATAG
1 TCATTTTCTATAATTGAATAG
1157214 AAGGTAACCT
Statistics
Matches: 71, Mismatches: 21, Indels: 10
0.70 0.21 0.10
Matches are distributed among these distances:
24 1 0.01
25 53 0.75
26 16 0.23
27 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (25 bp):
TCATTTTCTATAATTGAATAGTAAT
Found at i:1157196 original size:76 final size:76
Alignment explanation
Indices: 1157066--1157220 Score: 247
Period size: 76 Copynumber: 2.0 Consensus size: 76
1157056 TAACATAGTA
* * * *
1157066 TAAATGTTCTTGATTTAGATCACAAATCATTTTCTATAATTGGATGGTAATTCATTTTCTATACT
1 TAAATGTTCTTGATTAAGATCACAAATCATTTTCTATAATTGAATAGTAATTCATTTTCAATACT
*
1157131 TGAATAGTAGG
66 TGAATAGAAGG
* *
1157142 TAAATGTTCTTGATTAAGATCATAAATCATTTTCTATAATTGAATAGTAGTTCATTTTCAATACT
1 TAAATGTTCTTGATTAAGATCACAAATCATTTTCTATAATTGAATAGTAATTCATTTTCAATACT
1157207 TGAATAGAAGG
66 TGAATAGAAGG
1157218 TAA
1 TAA
1157221 CCTTTTATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.42
Consensus pattern (76 bp):
TAAATGTTCTTGATTAAGATCACAAATCATTTTCTATAATTGAATAGTAATTCATTTTCAATACT
TGAATAGAAGG
Found at i:1161678 original size:248 final size:245
Alignment explanation
Indices: 1161238--1161799 Score: 660
Period size: 248 Copynumber: 2.2 Consensus size: 245
1161228 GGTCCACCCG
* * * *
1161238 ACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAATAAAATTATTTTTATTCAATAAAAA
1 ACCCGAATATATGAATTAGAAATCAGACCCGAAATAATAAAAAAATTATTTTTATTCAAAAAAAA
* * *
1161303 CAGTGATTTAATTGAAAAATATATATATAGAGGGGTATTATTATAATTATTCCTAAATATGTAAT
66 CAGTGATTTAATTGAAAAAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAG
** * *
1161368 GTAAAATTATATATTTTTTTGGTCGGATCAGGTATTTTTCACCTTAAACTCGAACTCGACCCGAC
131 GTAAAATTATATATTTTTCGGGTCGAATCA-GTATTTTTCACCTAAAACTCG-A----ACCCGAC
* * *
1161433 TCGAATATCACACTTTAAAAAA-A-CCGACCCGACCAAAATAAAGTTTCA-CCTA-
190 CCGAATATCACACTTAAAAAAACACCCGACCCGACCAAAATAAAGTTTCACCCGAC
*
1161485 ACCCGAATATATGAATTAGAAATCTGACCCGAAATAATAAAAAAAATTATTTTTATTCAAAAAAA
1 ACCCGAATATATGAATTAGAAATCAGACCCGAAATAAT-AAAAAAATTATTTTTATTCAAAAAAA
*
1161550 ACAGTGATTTAATTGAAAAAAATTATATATAGA-GGGTATTATTGTAATTATTCCTAAATATATA
65 ACAGTGATTTAATTGAAAAAAA-TATATATAGAGGGGTATTATTATAATTATTCCTAAATATATA
1161614 AGGTAAAATTATATATATTTTCGGGTCGAAT-A-T-TTTTT-ACCCTAACCCGAACTCG-ACCCG
129 AGGTAAAATTATATAT-TTTTCGGGTCGAATCAGTATTTTTCA-CCTAA----AACTCGAACCCG
*
1161674 ACCCGAATATCATACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCC
188 ACCCGAATATCACACTTAAAAAAA-C-ACCCGACCCGACCAAAATAAAGTTTCACCCGA--C
* *
1161736 GAACCGAATATATGAATTAGAAATCAGACCCGACCCGAAATAATAAAAAAA-TAATTTTATTCAA
1 -ACCCGAATATATGAATTAGAAATC--A---GACCCGAAATAATAAAAAAATTATTTTTATTCAA
1161800 TATATGAATA
Statistics
Matches: 274, Mismatches: 19, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
243 26 0.09
244 1 0.00
245 9 0.03
246 2 0.01
247 61 0.22
248 93 0.34
249 27 0.10
252 23 0.08
255 12 0.04
256 7 0.03
257 13 0.05
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (245 bp):
ACCCGAATATATGAATTAGAAATCAGACCCGAAATAATAAAAAAATTATTTTTATTCAAAAAAAA
CAGTGATTTAATTGAAAAAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAG
GTAAAATTATATATTTTTCGGGTCGAATCAGTATTTTTCACCTAAAACTCGAACCCGACCCGAAT
ATCACACTTAAAAAAACACCCGACCCGACCAAAATAAAGTTTCACCCGAC
Found at i:1162650 original size:23 final size:23
Alignment explanation
Indices: 1162624--1162673 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1162614 ATCAATCACA
* *
1162624 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
*
1162647 ATAACGTAATAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
1162670 ATAA
1 ATAA
1162674 TAAAATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:1162680 original size:23 final size:23
Alignment explanation
Indices: 1162624--1162680 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
1162614 ATCAATCACA
* * *
1162624 ATAACATATTAGGTAGCGCTTAT
1 ATAACAAAATAGGTAACGCTTAT
**
1162647 ATAACGTAATAGGTAACGCTTAT
1 ATAACAAAATAGGTAACGCTTAT
*
1162670 ATAATAAAATA
1 ATAACAAAATA
1162681 TGTTAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (23 bp):
ATAACAAAATAGGTAACGCTTAT
Found at i:1162820 original size:158 final size:157
Alignment explanation
Indices: 1162294--1162804 Score: 797
Period size: 158 Copynumber: 3.2 Consensus size: 157
1162284 AACCGAGAAT
* * * * *
1162294 ATTATCAAATACAATAACATATTAGGTAGCACTTATATAATGTAATAGGTAGCACTTATATAATT
1 ATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAACGCTTATATAA-T
* *
1162359 AAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACACCTAAAATGTTACCAAA
65 AAAATAAGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAACA-CTAAAATGTTACCAAA
*
1162424 TATAACATAACCGGTTAATTACTGGAAAC
129 GATAACATAACCGGTTAATTACTGGAAAC
* * * * *
1162453 ATTATCAAGCACAATAACATATTAGGTAGCGATTATATAATGTAATAGGTATCGCTTCTATAATA
1 ATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAACGCTTATATAATA
** *
1162518 AAATAAGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAATGTCTAAAATGTTACCAATG
66 AAATAAGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAA-CACTAAAATGTTACCAAAG
1162583 ATAACATAACCGGTTAATTACTGGAAAC
130 ATAACATAACCGGTTAATTACTGGAAAC
*
1162611 ATTATCAATCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAACGCTTATATAATA
1 ATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAACGCTTATATAATA
*
1162676 AAATATGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAACACATAAAATGTTACCAAAG
66 AAATAAGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAACAC-TAAAATGTTACCAAAG
*
1162741 ATAACATAACCGGTTAATTACTAGAAAC
130 ATAACATAACCGGTTAATTACTGGAAAC
* *
1162769 ATTATTAAACATAATAACATATTAGGTAGCGCTTAT
1 ATTATCAAACACAATAACATATTAGGTAGCGCTTAT
1162805 GTGACAAAAT
Statistics
Matches: 324, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
157 1 0.00
158 267 0.82
159 56 0.17
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (157 bp):
ATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAACGCTTATATAATA
AAATAAGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAACACTAAAATGTTACCAAAGA
TAACATAACCGGTTAATTACTGGAAAC
Found at i:1162966 original size:73 final size:73
Alignment explanation
Indices: 1162889--1163133 Score: 366
Period size: 73 Copynumber: 3.4 Consensus size: 73
1162879 AAATTTAAAC
* * * * *
1162889 TACCTATTACATTAAAATACATAACGGTTTTTTTGAAGATTGTTAATAATATAAACGGTAAAAAA
1 TACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAA
1162954 ATAGGCGA
66 ATAGGCGA
* *
1162962 TACCTATTACATTAAAATACCTACCGATTTTTTTGAAGGTTGCTAATAATGTAAACAGTAAAAAA
1 TACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAAACGGT-AAAAA
* *
1163027 AATA-GTGT
65 AATAGGCGA
*
1163035 TACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAAACGTTAAAAAA
1 TACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAA
*
1163100 ATAGGCGC
66 ATAGGCGA
*
1163108 TACCTATTACATTAAACTACCTACCG
1 TACCTATTACATTAAAATACCTACCG
1163134 AATATGTTGA
Statistics
Matches: 155, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
72 9 0.06
73 137 0.88
74 9 0.06
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (73 bp):
TACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAA
ATAGGCGA
Found at i:1163422 original size:112 final size:112
Alignment explanation
Indices: 1163214--1163454 Score: 392
Period size: 112 Copynumber: 2.2 Consensus size: 112
1163204 TAGCGCCTAT
* *
1163214 AAAGTATCGATACTTTATAAAAATGTATCGATAATTTACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATATATCGATAATTTACAATATAACAGGTAAAAATATGACAAA
* **
1163279 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTAATATGTTG
66 ACCAAATTCATTATGACAAAACCGGTAAAGAGCTACCTAATATGTTG
* * * *
1163326 TAAGTGTCGACACTTTATAAAAATATATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATATATCGATAATTTACAATATAACAGGTAAAAATATGACAAA
*
1163391 ACCAAATTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTG
66 ACCAAATTCATTATGACAAAACCGGTAAAGAGCTACCTAATATGTTG
1163438 AAAGTATCGATACTTTA
1 AAAGTATCGATACTTTA
1163455 CAATATAACA
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 116 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATATATCGATAATTTACAATATAACAGGTAAAAATATGACAAA
ACCAAATTCATTATGACAAAACCGGTAAAGAGCTACCTAATATGTTG
Found at i:1163458 original size:91 final size:91
Alignment explanation
Indices: 1163351--1163544 Score: 316
Period size: 91 Copynumber: 2.1 Consensus size: 91
1163341 TATAAAAATA
1163351 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGG
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGG
1163416 TAAAGAGCTACCTGATATGTTGAAAG
66 TAAAGAGCTACCTGATATGTTGAAAG
* **
1163442 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCGG
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGG
* * *
1163507 TAAAGAGTTATCTTATATGTTGAAAG
66 TAAAGAGCTACCTGATATGTTGAAAG
**
1163533 TATAAATACTTT
1 TATCGATACTTT
1163545 TTATAAAATT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (91 bp):
TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGG
TAAAGAGCTACCTGATATGTTGAAAG
Found at i:1163589 original size:114 final size:114
Alignment explanation
Indices: 1163442--1163660 Score: 384
Period size: 114 Copynumber: 1.9 Consensus size: 114
1163432 ATGTTGAAAG
* *
1163442 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCGG
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGA
* * *
1163507 TAAAGAGTTATCTTATATGTTGAAAGTATAAATACTTTTTATAAAATTA
66 TAAAGAGCTACCTAATATGTTGAAAGTATAAATACTTTTTATAAAATTA
1163556 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGA
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGA
*
1163621 TAAAGAGCTACCTAATATGTTGAAAGTATATATACTTTTT
66 TAAAGAGCTACCTAATATGTTGAAAGTATAAATACTTTTT
1163661 GTACATGTAT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (114 bp):
TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGA
TAAAGAGCTACCTAATATGTTGAAAGTATAAATACTTTTTATAAAATTA
Found at i:1163627 original size:205 final size:203
Alignment explanation
Indices: 1163238--1163658 Score: 671
Period size: 205 Copynumber: 2.1 Consensus size: 203
1163228 TTATAAAAAT
* *
1163238 GTATCGATAATTTACAATATAACATGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCG
1 GTATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCG
* * **
1163303 GTAAAGAGCTACCTAATATGTTGTAAGTGTCGACACTTTATAAAAATATATCGATACTTTACAAT
66 GTAAAGAGCTACCTAATATGTTGAAAGTATAAACACTTTATAAAAATATATCGATACTTTACAAT
* *
1163368 ATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGGTAAAGAGCTACCTGATA
131 ATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGATAAAGAGCTACCTAATA
1163433 TGTTGAAA
196 TGTTGAAA
1163441 GTATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCG
1 GTATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCG
* * * * *
1163506 GTAAAGAGTTATCTTATATGTTGAAAGTATAAATACTTTTTATAAAATTATATCGATACTTTACA
66 GTAAAGAGCTACCTAATATGTTGAAAGTATAAACAC--TTTATAAAAATATATCGATACTTTACA
**
1163571 ATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGATAAAGAGCTACCTAA
129 ATATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGATAAAGAGCTACCTAA
1163636 TATGTTGAAA
194 TATGTTGAAA
**
1163646 GTATATATACTTT
1 GTATCGATACTTT
1163659 TTGTACATGT
Statistics
Matches: 199, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
203 91 0.46
205 108 0.54
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (203 bp):
GTATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCG
GTAAAGAGCTACCTAATATGTTGAAAGTATAAACACTTTATAAAAATATATCGATACTTTACAAT
ATAACAGGTAAAAATATGACAAAACCAAATTCATTATGACAAAACCGATAAAGAGCTACCTAATA
TGTTGAAA
Found at i:1172169 original size:28 final size:29
Alignment explanation
Indices: 1172125--1172181 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
1172115 TCATCACTTC
1172125 TCGTTTTTTCCATCAATAATTGATGCGAT
1 TCGTTTTTTCCATCAATAATTGATGCGAT
1172154 TCGTTTTTT-CATCAATAATTGATGCGAT
1 TCGTTTTTTCCATCAATAATTGATGCGAT
1172182 CAACGTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.46
Consensus pattern (29 bp):
TCGTTTTTTCCATCAATAATTGATGCGAT
Found at i:1172963 original size:21 final size:20
Alignment explanation
Indices: 1172936--1173078 Score: 114
Period size: 21 Copynumber: 6.9 Consensus size: 20
1172926 GATTCGTAAC
1172936 GCGAACTTCGACTATCGCAAT
1 GCGAA-TTCGACTATCGCAAT
* *
1172957 ACGAACTTTGACTATCGCAAT
1 GCGAA-TTCGACTATCGCAAT
*
1172978 GCGAATAT-GTA-AATCGCAAT
1 GCGAAT-TCG-ACTATCGCAAT
*
1172998 GCGATAGTCGACTATCGCAAT
1 GCGA-ATTCGACTATCGCAAT
*
1173019 GCGAATAT-GTA-AATCGCAAT
1 GCGAAT-TCG-ACTATCGCAAT
*
1173039 GCGATAGTCGACTATCGCAAT
1 GCGA-ATTCGACTATCGCAAT
*
1173060 GCGAACTTGGACTATCGCA
1 GCGAA-TTCGACTATCGCA
1173079 TTACAATTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
20 33 0.33
21 66 0.67
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (20 bp):
GCGAATTCGACTATCGCAAT
Found at i:1172994 original size:41 final size:41
Alignment explanation
Indices: 1172966--1173064 Score: 198
Period size: 41 Copynumber: 2.4 Consensus size: 41
1172956 TACGAACTTT
1172966 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1173007 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1173048 GACTATCGCAATGCGAA
1 GACTATCGCAATGCGAA
1173065 CTTGGACTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (41 bp):
GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:1172995 original size:20 final size:20
Alignment explanation
Indices: 1172970--1173042 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1172960 AACTTTGACT
1172970 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
1172990 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
1173011 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
1173031 ATCGCAATGCGA
1 ATCGCAATGCGA
1173043 TAGTCGACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 3 0.07
20 24 0.52
21 12 0.26
22 3 0.07
23 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:1173739 original size:22 final size:22
Alignment explanation
Indices: 1173713--1173796 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
1173703 ATTTTGGACT
1173713 ATCGCAA-CGAACTTGGAAATAA
1 ATCGCAACCGAACTTGG-AATAA
* *
1173735 ATCGCAACGCGAACTTCGACT--
1 ATCGCAAC-CGAACTTGGAATAA
*
1173756 ATCGCAA-CGAATTTTGGAATAA
1 ATCGCAACCGAA-CTTGGAATAA
1173778 ATCGCAACGCGAACTTGGA
1 ATCGCAAC-CGAACTTGGA
1173797 CTATCGCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
19 4 0.08
20 5 0.10
21 7 0.14
22 14 0.29
23 7 0.14
24 12 0.24
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
ATCGCAACCGAACTTGGAATAA
Found at i:1173761 original size:21 final size:21
Alignment explanation
Indices: 1173706--1173811 Score: 85
Period size: 21 Copynumber: 5.0 Consensus size: 21
1173696 CGTTGCGATT
1173706 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
1173725 TTGGAAATAAATCGCAACGCGAAC
1 TTGG-ACT--ATCGCAACGCGAAC
* *
1173749 TTCGACTATCGCAA--CGAATT
1 TTGGACTATCGCAACGCGAA-C
*
1173769 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1173792 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
1173812 TATGTAAATC
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
19 8 0.12
20 7 0.10
21 19 0.28
22 14 0.21
23 8 0.12
24 12 0.18
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:1173777 original size:43 final size:43
Alignment explanation
Indices: 1173709--1173805 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
1173699 TGCGATTTTG
1173709 GACTATCGCAACGAACTTGGAAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAAATAAATCGCAACGCGAACTTC
* *
1173752 GACTATCGCAACGAATTTTGG-AATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAA-CTTGGAAATAAATCGCAACGCGAACTTC
1173795 GACTATCGCAA
1 GACTATCGCAA
1173806 TGCGAATATG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (43 bp):
GACTATCGCAACGAACTTGGAAATAAATCGCAACGCGAACTTC
Found at i:1175543 original size:223 final size:213
Alignment explanation
Indices: 1175156--1175589 Score: 649
Period size: 223 Copynumber: 2.0 Consensus size: 213
1175146 ATTATAATAT
* *
1175156 TTTACTATCTTCTTCAACTGAAATTAAATTAAAATTGAATACTTAATTTTAATTGAATTCCTCAA
1 TTTACTATCTTCTTCAACTGAAATGAAATTAAAATTGAATACTTAATTTTAATTGAAGTCCTCAA
* * *
1175221 CTCAAAGAAGATGAACAACTAATTAAAAATGAAAAAAAAATTATATCTTGAAATCAGAAATAATA
66 CTCAAAGAAGATGAACAACCAAATAAAAATG-AAAAAAAATTATATCTTAAAATCAGAAATAATA
1175286 AAGGAGAATATATTTTCATTCATTTAAAAATAAAAACAATAAATAAAAAATGAATGTTAACTCTT
130 AAGGAGAATATATTTTCATTCATTTAAAAAT-------A-AAATAAAAAATGAATGTTAACTCTT
*
1175351 TTTAATAAATGATAACTAAATTTTTAG
187 TATAATAAATGATAACTAAATTTTTAG
* *
1175378 TTTACTATCTTCTTCAGCTGAAATGAAATTAAAAATTGAATACTTAATAATTTAATTGAAGTCTT
1 TTTACTATCTTCTTCAACTGAAATGAAATT-AAAATTGAATACTTAAT--TTTAATTGAAGTCCT
1175443 CAACTCAAAGAAGATGAACAACCAAATATAAAA-G-AAAAAAATTATATCTTAAAATCA-AAATT
63 CAACTCAAAGAAGATGAACAACCAAATA-AAAATGAAAAAAAATTATATCTTAAAATCAGAAA-T
1175505 AATAAAGGAGAATATATTTTCATTCATTTAAAAATAAAATAAAAAATGAATGTTAACTCTTTATA
126 AATAAAGGAGAATATATTTTCATTCATTTAAAAATAAAATAAAAAATGAATGTTAACTCTTTATA
1175570 ATAAATGATAACTAAATTTT
191 ATAAATGATAACTAAATTTT
1175590 AGAGTAGCAG
Statistics
Matches: 199, Mismatches: 8, Indels: 17
0.89 0.04 0.08
Matches are distributed among these distances:
215 48 0.24
216 1 0.01
222 31 0.16
223 75 0.38
225 40 0.20
226 4 0.02
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.34
Consensus pattern (213 bp):
TTTACTATCTTCTTCAACTGAAATGAAATTAAAATTGAATACTTAATTTTAATTGAAGTCCTCAA
CTCAAAGAAGATGAACAACCAAATAAAAATGAAAAAAAATTATATCTTAAAATCAGAAATAATAA
AGGAGAATATATTTTCATTCATTTAAAAATAAAATAAAAAATGAATGTTAACTCTTTATAATAAA
TGATAACTAAATTTTTAG
Found at i:1176979 original size:72 final size:72
Alignment explanation
Indices: 1176890--1177034 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
1176880 AAATTATGGT
1176890 TGAAAACTTAGAGAACTTATGAATGTTGACATATGATCTTATCTAGATGCTACAGTTTCTTACTT
1 TGAAAACTTAGAGAACTTATGAATGTTGACATATGATCTTATCTAGATGCTACAGTTTCTTACTT
1176955 GATTAAG
66 GATTAAG
1176962 TGAAAACTTAGAGAACTTATGAATGTTGACATATGATCTTATCTAGATGCTACAGTTTCTTACTT
1 TGAAAACTTAGAGAACTTATGAATGTTGACATATGATCTTATCTAGATGCTACAGTTTCTTACTT
1177027 GATTAAG
66 GATTAAG
1177034 T
1 T
1177035 TCGACGGTGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (72 bp):
TGAAAACTTAGAGAACTTATGAATGTTGACATATGATCTTATCTAGATGCTACAGTTTCTTACTT
GATTAAG
Found at i:1178247 original size:18 final size:19
Alignment explanation
Indices: 1178224--1178269 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
1178214 TTAAAATAAT
1178224 ATTATATTAAAATT-TTAA
1 ATTATATTAAAATTATTAA
* *
1178242 ATTATATTTAACTTATTAA
1 ATTATATTAAAATTATTAA
*
1178261 ATAATATTA
1 ATTATATTA
1178270 TAATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATATTAAAATTATTAA
Found at i:1180703 original size:24 final size:24
Alignment explanation
Indices: 1180676--1180751 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
1180666 TATATCAAAA
*
1180676 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
1180700 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* * * *
1180724 AACAGATCAG-AATCCAAGTCAAGT
1 ATCAAAACAGAAAT-CAGGTCAAGT
1180748 ATCA
1 ATCA
1180752 GATCAGAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:1180753 original size:24 final size:24
Alignment explanation
Indices: 1180693--1180807 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
1180683 CATAAATCAG
* *
1180693 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* *
1180717 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
1180741 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
1180765 GT-TAGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1180789 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
1180808 ATCAAATCGA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 5 0.06
24 74 0.91
25 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1180824 original size:48 final size:48
Alignment explanation
Indices: 1180693--1180824 Score: 130
Period size: 48 Copynumber: 2.8 Consensus size: 48
1180683 CATAAATCAG
* **
1180693 GTCAAGTATCATATCAGAAATCAGGTC-AAGTAA-CAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAAATCGAA--AATCAGATCAGAATCCAA
* * *
1180741 GTCAAGTATCAGATCAG-AATC-CAT-GTTAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAATCAAATCG--A-AAATCAGATCAGAATCCAA
1180789 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1180825 GTAAAATATT
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
46 1 0.01
47 5 0.07
48 54 0.78
49 6 0.09
50 2 0.03
51 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAGATCAGAATCCAA
Found at i:1183256 original size:7 final size:7
Alignment explanation
Indices: 1183244--1183275 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1183234 TGGTCAACTC
1183244 CGGTCAA
1 CGGTCAA
1183251 CGGTCAA
1 CGGTCAA
1183258 CGTGTCAA
1 CG-GTCAA
1183266 CGGTCAA
1 CGGTCAA
1183273 CGG
1 CGG
1183276 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.16
Consensus pattern (7 bp):
CGGTCAA
Found at i:1183266 original size:15 final size:15
Alignment explanation
Indices: 1183246--1183274 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1183236 GTCAACTCCG
1183246 GTCAACGGTCAACGT
1 GTCAACGGTCAACGT
1183261 GTCAACGGTCAACG
1 GTCAACGGTCAACG
1183275 GGTCGGGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (15 bp):
GTCAACGGTCAACGT
Found at i:1183278 original size:8 final size:8
Alignment explanation
Indices: 1183245--1183291 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
1183235 GGTCAACTCC
1183245 GGTCAAC-
1 GGTCAACG
1183252 GGTCAACG
1 GGTCAACG
*
1183260 TGTCAAC-
1 GGTCAACG
1183267 GGTCAACG
1 GGTCAACG
1183275 GGT---CG
1 GGTCAACG
1183280 GGTCAACG
1 GGTCAACG
1183288 GGTC
1 GGTC
1183292 GGGTCGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
5 5 0.15
7 13 0.39
8 15 0.45
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:1183285 original size:13 final size:13
Alignment explanation
Indices: 1183267--1183296 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1183257 ACGTGTCAAC
1183267 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1183280 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1183293 GGTC
1 GGTC
1183297 GGGTTGTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1184249 original size:23 final size:22
Alignment explanation
Indices: 1184223--1184294 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 22
1184213 AACAACCAAA
*
1184223 AAAGAAGACGAAAAACGTGACAC
1 AAAGAAGA-GAAAAACGTGTCAC
* * *
1184246 AAAGGTAGAGAAAAACGTGTTAT
1 AAA-GAAGAGAAAAACGTGTCAC
1184269 AAAGACAGAGAAAAACGTGTCAC
1 AAAGA-AGAGAAAAACGTGTCAC
1184292 AAA
1 AAA
1184295 TGCATAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.88
24 4 0.10
ACGTcount: A:0.54, C:0.12, G:0.22, T:0.11
Consensus pattern (22 bp):
AAAGAAGAGAAAAACGTGTCAC
Found at i:1189265 original size:21 final size:22
Alignment explanation
Indices: 1189239--1189280 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1189229 ATAACAATAC
*
1189239 TGTAGCA-GGGTATCGGTTCCT
1 TGTAGCAGGGGAATCGGTTCCT
1189260 TGTAGCAGGGGAATCGGTTCC
1 TGTAGCAGGGGAATCGGTTCC
1189281 CCTCCAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.29
Consensus pattern (22 bp):
TGTAGCAGGGGAATCGGTTCCT
Found at i:1192390 original size:7 final size:7
Alignment explanation
Indices: 1192380--1192404 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1192370 TTTTATATCT
1192380 AAAATTG
1 AAAATTG
1192387 AAAATTG
1 AAAATTG
1192394 AAAATTG
1 AAAATTG
1192401 AAAA
1 AAAA
1192405 AAATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAATTG
Found at i:1202308 original size:37 final size:37
Alignment explanation
Indices: 1202258--1202329 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
1202248 AATTCAGTTT
*
1202258 TTACATATTTGTTAGTTGAAATTGCGTGGTTCAACCA
1 TTACATATTTGTTAGTTGAAATCGCGTGGTTCAACCA
*
1202295 TTACATATTTGTTAGTTGAAATCGTGTGGTTCAAC
1 TTACATATTTGTTAGTTGAAATCGCGTGGTTCAAC
1202330 TATCTGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.42
Consensus pattern (37 bp):
TTACATATTTGTTAGTTGAAATCGCGTGGTTCAACCA
Found at i:1207512 original size:12 final size:12
Alignment explanation
Indices: 1207495--1207527 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1207485 ACCCCATGCC
1207495 ACTGAAAATTAG
1 ACTGAAAATTAG
1207507 ACTGAAAATTAG
1 ACTGAAAATTAG
1207519 ACTGAAAAT
1 ACTGAAAAT
1207528 CATTTAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (12 bp):
ACTGAAAATTAG
Found at i:1208786 original size:61 final size:60
Alignment explanation
Indices: 1208623--1208800 Score: 168
Period size: 60 Copynumber: 2.9 Consensus size: 60
1208613 ATCACGTGCC
* * * * *
1208623 CTCAAA-TTATGATCATCATTCTAAATTAGTCCATAAACTTTTAAACATTCCAATTTCATA
1 CTCAAACTTATGA-CTTCATTCTAAATTAGTCCCTAAACTTTTTAACATTTCAATTCCATA
* * * *
1208683 CTCAAAC-TATGATTGTCATTGTAAAGTAGT-CCTCACAA-TTTTTAACATTTCAATTCCA-C
1 CTCAAACTTATGACT-TCATTCTAAATTAGTCCCT-A-AACTTTTTAACATTTCAATTCCATA
*
1208742 CTCCAAACTTATGACCTTCATTCTAAATTGGTCCCTAAACTTTTTGAACATTTCAATTC
1 CT-CAAACTTATGA-CTTCATTCTAAATTAGTCCCTAAACTTTTT-AACATTTCAATTC
1208801 ATCCCAAACT
Statistics
Matches: 95, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
59 4 0.04
60 49 0.52
61 25 0.26
62 17 0.18
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (60 bp):
CTCAAACTTATGACTTCATTCTAAATTAGTCCCTAAACTTTTTAACATTTCAATTCCATA
Found at i:1209207 original size:14 final size:14
Alignment explanation
Indices: 1209171--1209214 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1209161 AAATTATATC
1209171 AATTAAACTTTT--T
1 AATTAAA-TTTTAAT
1209184 AATT-AATTTTAAT
1 AATTAAATTTTAAT
1209197 AATTAAATTTTAAT
1 AATTAAATTTTAAT
1209211 AATT
1 AATT
1209215 TCAAACCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.14
12 2 0.07
13 9 0.32
14 13 0.46
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTAAATTTTAAT
Found at i:1209730 original size:32 final size:32
Alignment explanation
Indices: 1209694--1209755 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1209684 ACATAACCAT
*
1209694 ACAATTTCATAGGAAATCATATAAAATAGAAC
1 ACAATTTCATAGAAAATCATATAAAATAGAAC
*
1209726 ACAATTTCATAGAAAATCATATGAAATAGA
1 ACAATTTCATAGAAAATCATATAAAATAGA
1209756 TTTGAAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.10, T:0.26
Consensus pattern (32 bp):
ACAATTTCATAGAAAATCATATAAAATAGAAC
Found at i:1214575 original size:15 final size:15
Alignment explanation
Indices: 1214551--1214621 Score: 90
Period size: 15 Copynumber: 4.8 Consensus size: 15
1214541 GGTTTTCCGA
1214551 AAAATGAATTACTGG
1 AAAATGAATTACTGG
** *
1214566 AATTTGAATTACTGT
1 AAAATGAATTACTGG
1214581 AAAATGAATTACTGG
1 AAAATGAATTACTGG
**
1214596 AATTTGAATT-CTGG
1 AAAATGAATTACTGG
1214610 AAAATGAATTAC
1 AAAATGAATTAC
1214622 ATTTCTGGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 12 0.27
15 33 0.73
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
AAAATGAATTACTGG
Found at i:1214585 original size:30 final size:29
Alignment explanation
Indices: 1214551--1214621 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 29
1214541 GGTTTTCCGA
*
1214551 AAAATGAATTACTGGAATTTGAATTACTGT
1 AAAATGAATTACTGGAATTTGAATT-CTGG
1214581 AAAATGAATTACTGGAATTTGAATTCTGG
1 AAAATGAATTACTGGAATTTGAATTCTGG
1214610 AAAATGAATTAC
1 AAAATGAATTAC
1214622 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 15 0.38
30 25 0.62
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (29 bp):
AAAATGAATTACTGGAATTTGAATTCTGG
Found at i:1214645 original size:14 final size:14
Alignment explanation
Indices: 1214623--1214661 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1214613 ATGAATTACA
*
1214623 TTTCTGGAAAACGT
1 TTTCCGGAAAACGT
*
1214637 TTTCCGGAATACGT
1 TTTCCGGAAAACGT
*
1214651 TTTCCGTAAAA
1 TTTCCGGAAAA
1214662 TGAATTACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (14 bp):
TTTCCGGAAAACGT
Found at i:1215037 original size:19 final size:20
Alignment explanation
Indices: 1214985--1215037 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1214975 TTAAATATCT
1214985 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
1215004 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
1215025 TTATTAAATATAT
1 TTATTAAATATAT
1215038 AAAAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:1215051 original size:21 final size:22
Alignment explanation
Indices: 1215025--1215065 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1215015 ATATTATTCA
1215025 TTATTAAATA-TATAAAAATTT
1 TTATTAAATATTATAAAAATTT
* *
1215046 TTATTATATATTATTAAAAT
1 TTATTAAATATTATAAAAAT
1215066 AAAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTAAATATTATAAAAATTT
Found at i:1215051 original size:24 final size:27
Alignment explanation
Indices: 1214994--1215052 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
1214984 TTTATTAAAA
1214994 TATTATTTAAATATATAAATAATATTAT
1 TATTA-TTAAATATATAAATAATATTAT
1215022 TCATTATTAAATATATAAA-AAT-TT-T
1 T-ATTATTAAATATATAAATAATATTAT
1215047 TATTAT
1 TATTAT
1215053 ATATTATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 2 0.07
27 3 0.10
28 14 0.47
29 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTATTAAATATATAAATAATATTAT
Found at i:1215128 original size:31 final size:33
Alignment explanation
Indices: 1215082--1215161 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 33
1215072 ATAACATCTT
* *
1215082 ATATTATTATAATATAATTGATTATTTTA-TAT-A
1 ATATTAATA-AATATAATT-ATTATATTATTATAA
1215115 ATATTAA-AAATATAA-TATTATATTATTATAA
1 ATATTAATAAATATAATTATTATATTATTATAA
1215146 ATATTAATAAAT-TAAT
1 ATATTAATAAATATAAT
1215162 AAATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 8 0.20
30 4 0.10
31 18 0.44
32 5 0.12
33 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
ATATTAATAAATATAATTATTATATTATTATAA
Found at i:1215136 original size:22 final size:23
Alignment explanation
Indices: 1215111--1215154 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1215101 GATTATTTTA
1215111 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1215133 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1215155 AATTAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1217408 original size:20 final size:17
Alignment explanation
Indices: 1217368--1217403 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1217358 TATGTTATTT
*
1217368 TTAAAAAATAATATAAA
1 TTAAAAAATAAAATAAA
1217385 TTAAGAAAATAAAATAAA
1 TTAA-AAAATAAAATAAA
1217403 T
1 T
1217404 ATTAACCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
TTAAAAAATAAAATAAA
Found at i:1219547 original size:30 final size:30
Alignment explanation
Indices: 1219513--1219570 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1219503 CTGCAGTATT
*
1219513 ACATAAGCTTCGATAGTATGTTCAATTTCA
1 ACATAAGCTTCGACAGTATGTTCAATTTCA
* *
1219543 ACATAAGCTTTGACAGTATGTTCCATTT
1 ACATAAGCTTCGACAGTATGTTCAATTT
1219571 AAAACACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (30 bp):
ACATAAGCTTCGACAGTATGTTCAATTTCA
Found at i:1222639 original size:30 final size:30
Alignment explanation
Indices: 1222580--1222675 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
1222570 CCCGAAGGAC
* *
1222580 CTATCCAGAGGTCACAAA-ATCCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1222609 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1222639 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1222669 CTGTCCA
1 CTATCCA
1222676 TATGTTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
29 17 0.27
30 46 0.73
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1222706 original size:31 final size:30
Alignment explanation
Indices: 1222664--1222761 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
1222654 AAAGATCCTC
*
1222664 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
1222694 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
*
1222725 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
1222757 GGTAA
1 GGTAA
1222762 ACCCTCGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.44
32 25 0.44
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:1229322 original size:21 final size:21
Alignment explanation
Indices: 1229292--1229336 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1229282 ATTCTGTCGT
* *
1229292 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1229313 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1229334 TTG
1 TTG
1229337 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1234338 original size:29 final size:29
Alignment explanation
Indices: 1234296--1234368 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
1234286 AACAAAAATC
1234296 TGTCAAACTTTGAACCATGCACCATTCAA
1 TGTCAAACTTTGAACCATGCACCATTCAA
***
1234325 TGTCAAACTTTGAACCATGCACCATTTGG
1 TGTCAAACTTTGAACCATGCACCATTCAA
*
1234354 TGCCAAACTTTGAAC
1 TGTCAAACTTTGAAC
1234369 TTTCAACATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
TGTCAAACTTTGAACCATGCACCATTCAA
Found at i:1241010 original size:30 final size:30
Alignment explanation
Indices: 1240974--1241034 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1240964 CTGCAGTAAT
* * *
1240974 ACATAAGCTTCCATAGTATGTTCGATTTAA
1 ACATAAGCTTCCACAGTATGCTCGAGTTAA
*
1241004 ACATAAGCTTCGACAGTATGCTCGAGTTAA
1 ACATAAGCTTCCACAGTATGCTCGAGTTAA
1241034 A
1 A
1241035 ACACATGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (30 bp):
ACATAAGCTTCCACAGTATGCTCGAGTTAA
Found at i:1242020 original size:24 final size:24
Alignment explanation
Indices: 1241985--1242041 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
1241975 GTTACAAGAG
*
1241985 TCATTTTCTGCGATAAACTCCTCA
1 TCATTTTCTGCGAGAAACTCCTCA
*
1242009 TCATATTT-TGCGAGAAACTTCTCA
1 TCAT-TTTCTGCGAGAAACTCCTCA
*
1242033 GCATCTTTC
1 TCAT-TTTC
1242042 ATAAACAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.39
Consensus pattern (24 bp):
TCATTTTCTGCGAGAAACTCCTCA
Found at i:1244804 original size:12 final size:13
Alignment explanation
Indices: 1244777--1244805 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1244767 TAAAAATTGA
1244777 AAAAAAAAACAGG
1 AAAAAAAAACAGG
1244790 AAAAAAAAACA-G
1 AAAAAAAAACAGG
1244802 AAAA
1 AAAA
1244806 CCCTAAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAGG
Found at i:1246290 original size:19 final size:19
Alignment explanation
Indices: 1246266--1246319 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1246256 ATACTCAAAA
1246266 TAATATTATTTT-ATATATT
1 TAATATTATTTTAATAT-TT
* *
1246285 TAATATTAATATAATATTT
1 TAATATTATTTTAATATTT
*
1246304 TAGTATTATTTTAATA
1 TAATATTATTTTAATA
1246320 AAAATATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 25 0.86
20 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATATTATTTTAATATTT
Found at i:1246816 original size:22 final size:23
Alignment explanation
Indices: 1246791--1246834 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1246781 TTATTCTAAT
1246791 ATTTTTAAAAT-AATAATATTAC
1 ATTTTTAAAATAAATAATATTAC
*
1246813 ATTTTTATAATAAATAATATTA
1 ATTTTTAAAATAAATAATATTA
1246835 TTTATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTTAAAATAAATAATATTAC
Found at i:1246842 original size:22 final size:20
Alignment explanation
Indices: 1246790--1246843 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
1246780 ATTATTCTAA
*
1246790 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
1246810 TACATTTTTATAATAAATAATAT
1 T--ATTTTTATAAT-AATAATAT
1246833 TATTTATTATA
1 TATTT-TTATA
1246844 TTTCATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:1264980 original size:24 final size:24
Alignment explanation
Indices: 1264953--1264998 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1264943 CTCGTATAAA
*
1264953 TGCAATGAAGTGCCACGTAGAATT
1 TGCAATAAAGTGCCACGTAGAATT
* *
1264977 TGCACTAAAGTGCCGCGTAGAA
1 TGCAATAAAGTGCCACGTAGAA
1264999 ATGCACCGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (24 bp):
TGCAATAAAGTGCCACGTAGAATT
Found at i:1266017 original size:12 final size:12
Alignment explanation
Indices: 1266000--1266047 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
1265990 CTATATGATA
*
1266000 TGAACAATACCG
1 TGAACAGTACCG
*
1266012 TGAACAGTACTG
1 TGAACAGTACCG
* *
1266024 TGAATAGTACTG
1 TGAACAGTACCG
1266036 TGAACAGTACCG
1 TGAACAGTACCG
1266048 AATGCTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:1266096 original size:22 final size:22
Alignment explanation
Indices: 1266068--1266118 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1266058 TTTTCCAGAA
*
1266068 TGCTACAGGGGTA-TCGATGCCC
1 TGCTACAGGGGTACT-GATACCC
*
1266090 TGCTACA-GTGTACTGATACCC
1 TGCTACAGGGGTACTGATACCC
1266111 TGCTACAG
1 TGCTACAG
1266119 TAATTTCGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (22 bp):
TGCTACAGGGGTACTGATACCC
Found at i:1268829 original size:10 final size:10
Alignment explanation
Indices: 1268814--1268876 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
1268804 TTTCACGGGG
1268814 AGAAGGAAGA
1 AGAAGGAAGA
*
1268824 AGAAGGGAGA
1 AGAAGGAAGA
*
1268834 AGAA-GAAGGG
1 AGAAGGAA-GA
1268844 AGAA-GAAGA
1 AGAAGGAAGA
*
1268853 AG-GGAGAAGA
1 AGAAG-GAAGA
*
1268863 AGAAGGGAGA
1 AGAAGGAAGA
1268873 AGAA
1 AGAA
1268877 TAAGGGAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 36 0.86
11 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (10 bp):
AGAAGGAAGA
Found at i:1268837 original size:13 final size:13
Alignment explanation
Indices: 1268819--1268884 Score: 123
Period size: 13 Copynumber: 5.1 Consensus size: 13
1268809 CGGGGAGAAG
1268819 GAAGAAGAAGGGA
1 GAAGAAGAAGGGA
1268832 GAAGAAGAAGGGA
1 GAAGAAGAAGGGA
1268845 GAAGAAGAAGGGA
1 GAAGAAGAAGGGA
1268858 GAAGAAGAAGGGA
1 GAAGAAGAAGGGA
*
1268871 GAAGAATAAGGGA
1 GAAGAAGAAGGGA
1268884 G
1 G
1268885 TTTTCCAGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.02
Consensus pattern (13 bp):
GAAGAAGAAGGGA
Found at i:1271267 original size:108 final size:107
Alignment explanation
Indices: 1271073--1271373 Score: 469
Period size: 108 Copynumber: 2.8 Consensus size: 107
1271063 CAGTCGCATG
* *
1271073 TATCGTGTGGGTGCGCCTCAAATCTCAGAGATTAATTTATGAGCGCAAAAGAGAGCC-CCGTGAT
1 TATCATGTGGGTGCGCCTCAAATCTCAGAGATTAA-TTATGAGCGCAAAAGAGAGCCTCC-TGAC
*
1271137 TTGCACATTCATTAACAAATATACTAGTGTTCTACCTTATAAAC
64 TTGCACATTCATTAGCAAATATACTAGTGTTCTACCTTATAAAC
* **
1271181 TATCATGTGGGGGCGCCTCAAATCTCAGAGATTAACTTATGAGTTCAAAAGAGAGCCTCCTGACT
1 TATCATGTGGGTGCGCCTCAAATCTCAGAGATTAA-TTATGAGCGCAAAAGAGAGCCTCCTGACT
* *
1271246 TGCACATTCATTAGCAAATATATTGGTGTTCTACCTTATAAAC
65 TGCACATTCATTAGCAAATATACTAGTGTTCTACCTTATAAAC
* **
1271289 TATCACGTGGGTGCGCCTCAAATCTCAGAGATTAATTATGAGCGCAAAAGAGAGCCTGGTGACTT
1 TATCATGTGGGTGCGCCTCAAATCTCAGAGATTAATTATGAGCGCAAAAGAGAGCCTCCTGACTT
1271354 GCACATTCATTAGCAAATAT
66 GCACATTCATTAGCAAATAT
1271374 TGTAACACTC
Statistics
Matches: 177, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
107 46 0.26
108 129 0.73
109 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (107 bp):
TATCATGTGGGTGCGCCTCAAATCTCAGAGATTAATTATGAGCGCAAAAGAGAGCCTCCTGACTT
GCACATTCATTAGCAAATATACTAGTGTTCTACCTTATAAAC
Found at i:1272747 original size:20 final size:20
Alignment explanation
Indices: 1272722--1272779 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1272712 ATGTGAAATT
1272722 TGTCCCGAATGACCTATATA
1 TGTCCCGAATGACCTATATA
* * *
1272742 TGTCCCGAATAACCTCTTTA
1 TGTCCCGAATGACCTATATA
*
1272762 TGTCCCGAAGGACCTATA
1 TGTCCCGAATGACCTATA
1272780 AACCCTCGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
TGTCCCGAATGACCTATATA
Found at i:1272886 original size:21 final size:21
Alignment explanation
Indices: 1272857--1272935 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
1272847 TGATCATTTA
* *
1272857 ACATTTTCATATAAACATATC
1 ACATATTCATATAAGCATATC
1272878 ACATATTCATATAAGCATATC
1 ACATATTCATATAAGCATATC
1272899 ACATATTCATATAAGCATATC
1 ACATATTCATATAAGCATATC
1272920 ACATATTCATATAAGC
1 ACATATTCATATAAGC
1272936 TCATAGCTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (21 bp):
ACATATTCATATAAGCATATC
Found at i:1277887 original size:20 final size:20
Alignment explanation
Indices: 1277862--1277959 Score: 151
Period size: 20 Copynumber: 4.9 Consensus size: 20
1277852 ATGTGAAATT
*
1277862 TGTCCCGAAGAACCTATGTA
1 TGTCCCGAAGGACCTATGTA
1277882 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
*
1277902 TGTCCCGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTATGTA
*
1277922 TGTCCCGAAGGACCTCTGTA
1 TGTCCCGAAGGACCTATGTA
* *
1277942 TGTCCTGAAAGACCTATG
1 TGTCCCGAAGGACCTATG
1277960 AACCCTCAAC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (20 bp):
TGTCCCGAAGGACCTATGTA
Found at i:1278820 original size:20 final size:20
Alignment explanation
Indices: 1278795--1278841 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1278785 ATTTAAAGTA
*
1278795 GGTATCGGTACCCTTTATAG
1 GGTATCGGTACCCTCTATAG
1278815 GGTATCGGTACCCTCTATAG
1 GGTATCGGTACCCTCTATAG
1278835 GGTATCG
1 GGTATCG
1278842 ATACATCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (20 bp):
GGTATCGGTACCCTCTATAG
Found at i:1280179 original size:156 final size:157
Alignment explanation
Indices: 1279891--1280204 Score: 621
Period size: 156 Copynumber: 2.0 Consensus size: 157
1279881 CTAATTTCTT
1279891 TTTCCTCAATACCATTTGCATGTAGCTTACTTTGAGCATCAATTTCTTATTCATTACTTGATCAT
1 TTTCCTCAATACCATTTGCATGTAGCTTACTTTGAGCATCAATTTCTTATTCATTACTTGATCAT
1279956 TTTTGAGCATATTATATATCAAAGATCTCATGAAATAGAATATAAAACCATAATTTTATTATTCA
66 TTTTGAGCATATTATATATCAAAGATCTCATGAAATAGAATATAAAACCATAATTTTATTATTCA
1280021 ATCACCTGGTTATTTCAATAAATAATA
131 ATCACCTGGTTATTTCAATAAATAATA
1280048 TTTCCTCAATACCATTTGCATGTAGCTTACTTTGAGCATCAATTTCTTATTCATTACTTGATCA-
1 TTTCCTCAATACCATTTGCATGTAGCTTACTTTGAGCATCAATTTCTTATTCATTACTTGATCAT
1280112 TTTTGAGCATATTATATATCAAAGATCTCATGAAATAGAATATAAAACCATAATTTTATTATTCA
66 TTTTGAGCATATTATATATCAAAGATCTCATGAAATAGAATATAAAACCATAATTTTATTATTCA
1280177 ATCACCTGGTTATTTCAATAAATAATA
131 ATCACCTGGTTATTTCAATAAATAATA
1280204 T
1 T
1280205 ATCTTAAAAG
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
156 93 0.59
157 64 0.41
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (157 bp):
TTTCCTCAATACCATTTGCATGTAGCTTACTTTGAGCATCAATTTCTTATTCATTACTTGATCAT
TTTTGAGCATATTATATATCAAAGATCTCATGAAATAGAATATAAAACCATAATTTTATTATTCA
ATCACCTGGTTATTTCAATAAATAATA
Found at i:1281505 original size:30 final size:30
Alignment explanation
Indices: 1281471--1281536 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
1281461 TAGCCACCCA
1281471 CAGTCCTGTCGGAACATCTCCATAACCACT
1 CAGTCCTGTCGGAACATCTCCATAACCACT
1281501 CAGTCCTGTCGGAACATCTCCATAACCACT
1 CAGTCCTGTCGGAACATCTCCATAACCACT
1281531 CAGTCC
1 CAGTCC
1281537 CGATATAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (30 bp):
CAGTCCTGTCGGAACATCTCCATAACCACT
Found at i:1283711 original size:23 final size:23
Alignment explanation
Indices: 1283685--1283732 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1283675 ATAAAGTACA
*
1283685 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1283708 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1283731 AT
1 AT
1283733 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1284474 original size:18 final size:18
Alignment explanation
Indices: 1284451--1284485 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1284441 CCGAAATATA
1284451 TGAAATTCAAACTCAAAT
1 TGAAATTCAAACTCAAAT
* *
1284469 TGAAATTTAAATTCAAA
1 TGAAATTCAAACTCAAA
1284486 CTCCAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
TGAAATTCAAACTCAAAT
Found at i:1284504 original size:24 final size:25
Alignment explanation
Indices: 1284448--1284504 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
1284438 GAGCCGAAAT
1284448 ATATGAAATTCAAACTCAAATTGAA
1 ATATGAAATTCAAACTCAAATTGAA
* * *
1284473 AT-TTAAATTCAAACTCCAATT-AC
1 ATATGAAATTCAAACTCAAATTGAA
1284496 ATATGAAAT
1 ATATGAAAT
1284505 GAATTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (25 bp):
ATATGAAATTCAAACTCAAATTGAA
Found at i:1284715 original size:23 final size:23
Alignment explanation
Indices: 1284689--1284753 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
1284679 ATGCGAGATA
1284689 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
1284712 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
1284735 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
1284754 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:1285140 original size:23 final size:23
Alignment explanation
Indices: 1285114--1285175 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
1285104 ATATAACCAT
1285114 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1285137 TACCTATTACA-TATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1285159 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1285176 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1285546 original size:21 final size:21
Alignment explanation
Indices: 1285516--1285565 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1285506 GATAGACACT
*
1285516 TTACAATAT-AACCATTACCTA
1 TTACATTATAAACCA-TACCTA
*
1285537 TTACATTATAAACGATACCTA
1 TTACATTATAAACCATACCTA
1285558 TTACATTA
1 TTACATTA
1285566 ATAAGGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
TTACATTATAAACCATACCTA
Found at i:1285648 original size:415 final size:421
Alignment explanation
Indices: 1284691--1285687 Score: 1783
Period size: 415 Copynumber: 2.4 Consensus size: 421
1284681 GCGAGATAGA
1284691 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1284756 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
1284821 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAACAGTG-TTCATGTTTTCCACCTACAATATTGATTTAATAA
1284886 TTTCATTTGCACAAAAAAATTTGATTGTTTTTATATTTATAAAATATTATTTAGAATTTTTAATT
195 TTTCATTTGCACAAAAAAATTTGATTGTTTTTATATTTATAAAATATTATTTAGAATTTTTAATT
1284951 TAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAATTAATATC
260 T-ATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAATTAATATC
1285016 TTAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
324 TTAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
1285081 ATAAAAAGGATAGACACTTTACAATATAACCAT
389 ATAAAAAGGATAGACACTTTACAATATAACCAT
1285114 TACCTATTACATTATATAAACGATACCTATTACA-TATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1285178 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATAC-TTTTTTAAAACTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
1285242 GTAATTTATGTTTCAATTTTTTTAACAGTGTTCATGTTTTCCACCTAC-A-ATTGATTTAATAAT
131 GTAATTTATGTTTCAATTTTTTTAACAGTGTTCATGTTTTCCACCTACAATATTGATTTAATAAT
1285305 TTCATTTGCACAAAAAATTATTTGATTGTTTTT-TATTTTATAAAATATTA-TTAGAATTTTTAA
196 TTCATTTGCACAAAAAA--ATTTGATTGTTTTTATA-TTTATAAAATATTATTTAGAATTTTTAA
1285368 -TT-TAATAA-ATATACCGT-ACGTAAAAAATAAATCATTAGAC-CCTATAATTACTAAATTAAT
258 TTTATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACT-AATTAAT
1285428 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
321 ATCTT-AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACA
1285493 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
384 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
1285531 TACCTATTACA-T-TATAAACGATACCTATTACATTA-ATAAGGGCTACCTATT-CATCATA-GT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
1285591 TTACCTAATATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTA
1285656 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
130 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
1285688 ACTGCGAATT
Statistics
Matches: 563, Mismatches: 1, Indels: 28
0.95 0.00 0.05
Matches are distributed among these distances:
413 36 0.06
414 37 0.07
415 121 0.21
416 53 0.09
417 63 0.11
418 33 0.06
419 16 0.03
420 46 0.08
421 45 0.08
422 79 0.14
423 34 0.06
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (421 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAACTTAT
GTAATTTATGTTTCAATTTTTTTAACAGTGTTCATGTTTTCCACCTACAATATTGATTTAATAAT
TTCATTTGCACAAAAAAATTTGATTGTTTTTATATTTATAAAATATTATTTAGAATTTTTAATTT
ATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAATTAATATCTT
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTAT
AAAAAGGATAGACACTTTACAATATAACCAT
Found at i:1288652 original size:183 final size:184
Alignment explanation
Indices: 1288133--1288982 Score: 1568
Period size: 183 Copynumber: 4.7 Consensus size: 184
1288123 TTTTAAATGG
* * *
1288133 TATGGACATAAAGTACTGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1288198 TAAAACCGGTATA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1288262 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1288316 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1288380 T-AGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1288444 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1288498 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1288563 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1288627 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
1288681 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1288746 TAA-ACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTTC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1288810 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1288864 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
1288929 TAAGACC-GTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1288983 ATGTTGAAAG
Statistics
Matches: 649, Mismatches: 13, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
181 10 0.02
182 216 0.33
183 370 0.57
184 53 0.08
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:1290451 original size:3 final size:3
Alignment explanation
Indices: 1290443--1290526 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
1290433 ACTTGTTTGG
* * * ** *
1290443 ATC ATC ATC TTC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
1290491 TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1290527 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1290460 original size:12 final size:12
Alignment explanation
Indices: 1290443--1290541 Score: 72
Period size: 12 Copynumber: 8.0 Consensus size: 12
1290433 ACTTGTTTGG
1290443 ATCATCATCTTC
1 ATCATCATCTTC
1290455 ATCATCATCATCATC
1 ATCATCATC-T--TC
*
1290470 GTCATCATCTTC
1 ATCATCATCTTC
** *
1290482 ATCGCCAGCTTC
1 ATCATCATCTTC
* *
1290494 ATCGTCATCATC
1 ATCATCATCTTC
*
1290506 ATCATCATCGTC
1 ATCATCATCTTC
* *
1290518 ATCTTCATCGTC
1 ATCATCATCTTC
* *
1290530 AGCTTCATCTTC
1 ATCATCATCTTC
1290542 TGCGACCGAT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
12 59 0.83
13 1 0.01
14 1 0.01
15 10 0.14
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.36
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:1290520 original size:42 final size:42
Alignment explanation
Indices: 1290456--1290538 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
1290446 ATCATCTTCA
*
1290456 TCATCATCATCATCGTCATCATCTTCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCTTCATCG
* *
1290498 TCATCATCATCATCATCGTCATCTTCATCGTCAGCTTCATC
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCTTCATC
1290539 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCTTCATCG
Found at i:1290537 original size:18 final size:18
Alignment explanation
Indices: 1290474--1290541 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
1290464 ATCATCGTCA
*
1290474 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* *
1290492 TCATCGTCATCATCATCATCAT
1 TCATC-T--TCATCGTCAGC-T
1290514 CGTCATCTTCATCGTCAGCT
1 --TCATCTTCATCGTCAGCT
1290534 TCATCTTC
1 TCATCTTC
1290542 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.19, C:0.35, G:0.09, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Done.